Using wetlandHTLN R pkg.

Using the wetlandHTLN R package

Getting started

Installation

Step 1. Install R, RStudio, and RTools44 in Software Center

Step 2. Install devtools package in R:

install.packages('devtools')

Step 3. Install wetlandHTLN from GitHub

Note that whenever the wetlandHTLN package is updated, you can rerun this code to install the latest version.

library(devtools)
install_github("KateMMiller/wetlandHTLN")

Step 4. Load wetlandHTLN R package

library(wetlandHTLN)

Step 5. Import wetland monitoring data

Note that R is not able to connect to files on Sharepoint or MS Teams (b/c Teams also stores all files on Sharepoint). That means you need to store the database (and eventually the data package files) on your local machine, OneDrive, or HTLN server. The importData() function defaults are to import required data tables from the HTLN_wetlands Access database and then compile the data package views (i.e. flatfiles) for use with the R package. Using the default settings requires the DBI and odbc packages to be installed, and users must have MS Access installed on their computer. If those packages aren’t installed, you’ll get an error message in the console asking you to install them. Once the data package is published, I’ll add importing data package views as an option in this function, which then will not require MS Access or the DBI and odbc packages.

To keep your workspace clean (i.e. the top right panel with the Environment tab) in R, the default setting for importData() is to import data files into an environment called HTLN_wetlands. If you would rather import each individual view into your R session, specify with the new_env argument (e.g., importData(new_env = F)). To import data using the default settings (i.e. run importData() with no arguments), you must have the HTLN_wetlands access database set as a User DSN called HTLN_wetlands (see “Setting up DSN” tab for more details).

Currently, the importData() function only imports views related to the VIBI. Over time, options to compile/import views for ORAM and hydrology will be added.

Option 1. Import data using default settings, which imports from DSN named HTLN_wetlands.

#install.packages(c('odbc', 'DBI')) # Only run if not already installed.

importData() 
importData(type = "DSN", odbc = "HTLN_wetlands", data_type = "vibi") # equivalent to previous line

Option 2. Import data from a specified database.

importData(type ='dbfile',
   filepath = 'C:/Users/KMMiller/OneDrive - DOI/MWR/HTLN_wetlands/HTLNwetlands3.4.6.accdb')

Additional import options will be added as the data package is completed for VIBI, and as ORAM and hydrology import features are added, including the ability to export views as csvs and/or a zipped file containing csvs.

Step 6. Play with the data

The functions in the wetlandHTLN package are designed to work with the views, and are the best way to interact with the data to query by park, site, site type, year, parameter, etc. However, if you want to view the raw data, and you imported the data into the HTLN_wetlands environment, you can access them with the code below:

# See list of the views
names(HTLN_wetlands)

# Look at one of the views
View(HTLN_wetlands$herbVIBI)

# See top 6 records 
head(HTLN_wetlands$herbVIBI)

# Check structure of view
str(HTLN_wetlands$woodyVIBI)

# Assign a view to a data frame named herbs in R. Interact with herbs the way you would work with any normal data frame in R. 
herbs <- HTLN_wetlands$herbVIBI

While this works, the better approach is to use the “getter” functions within the R package, which access the same files, but allow you to also query data based on park, location, years, plot name, species, etc. See the specific getter function tabs for details.

If you want to use the print_head() function that shows output in this markdown, run the code below. This makes the results print cleaner in the markdown report. For your purposes, you can just run: head(dataframe).

print_head <- function(df){
  knitr::kable(df[1:6,]) |> #, table.attr = "style='width:60%;'") |> 
    kableExtra::kable_classic(full_width = F, font_size = 12, 
                              bootstrap_options = c("condensed"))
}

Troubleshooting Build Tools:

If you’re contributing to the package, you’ll need to use build tools to build and install the package to test changes before posting to GitHub. Unfortunately Software Center installs RTools44 in C:/Program Files/, not C:/, which is where RStudio looks for it by default. The following code helps RStudio find RTools. You may occasionally have to rerun this code (except for the usethis line), so keep it handy. You know when you have to rerun the code when you try to rebuild a package, and a window pops up to ask if you want to install missing build files.

# Set r environ to find rtools on opening
usethis::edit_r_environ()
Sys.setenv(PATH = paste("C:\\PROGRA~1\\Rtools44\\bin", Sys.getenv("PATH"), sep=";"))
Sys.setenv(BINPREF = "C:\\PROGRA~1\\Rtools44\\mingw_$(WIN)\\bin\\")

Getting help

Getting (and improving) help

The functions in wetlandHTLN have help documentation like any R package. To view the help, you can go to the Packages tab and click on wetlandHTLN (see below). That will show you all the functions in the package. Clicking on individual functions will take you to the help documentation for that function.

You can also see the help of a function by running, for example:

?importData

If wetlandHTLN isn’t loaded yet, you’d run:

?wetlandHTLN::importData

Each function’s help includes a Description, Usage (i.e. function arguments and their defaults), Argument options/definitions, and several examples showing how the function can be used.

This is where you come in! If you notice typos or can think of better descriptions, examples, error messages, etc., please send them my way! After we’re more comfortable with R packages and get versed on GitHub, you’ll be able to make those changes directly in the package. For now, you can just send me your suggestions and I’ll make the changes.

Finally, if you ever want to peak under the hood at the function, you can view it several ways.

Keep F2 key pressed and click on the function name in R. This trick works for many but not all functions in R.
View code in the GitHub katemmiller/wetlandHTLN repo. The functions are in the R folder.

Setting up DSN

Setting up a DSN

Go to Windows Start Menu and search ODBC. Click on ODBC Data Sources (64-bit)

Click on Add, then select Microsoft Access Driver (*.mdb, *.accdb) then click Finish in next menu.

Enter HTLN_wetlands into the Data Source Name (red arrow), click on Select (red circle). In the new window, click on C:/ and find the path to your database. To navigate to a OneDrive folder, go to C:/Users//OneDrive - DOI/ and then find the correct folder. If it’s not on your C: Drive, then click on the Drives window in bottom right and select correct drive. Click on the database (yellow arrow), then click OK. Finally, add the name of the database file to the Description (blue arrow), so it’s easier to check whether you’re using the latest version.

If updating an existing DSN, follow similar process, except click on the DSN in the first window and select Configure instead of Add.

Get Data functions

getBigTrees()

This function filters big tree data (i.e. trees > 40cm DBH) by plot, year, plot types, dominant vegetation, and nativity.

Get Big Tree data using default settings that return all records.

bigt <- getBigTrees()

print_head(bigt)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DBH	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Acer negundo	BOX ELDER	L.	Aceraceae	ACENEG	3	2	FAC+	tree	W	tree	ACNE2	NA	DI	native	FAC	FAC	FAC	NA	2	42.0	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	2	50.0	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	3	56.5	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	3	68.0	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	6	70.5	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	7	53.5	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation

Return only 2023 data

bigtree23 <- getBigTrees(years = 2023)

print_head(bigtree23)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DBH	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd136	526	CUVA	Summit	2023-06-01	2023	2023-08-01	2023	10	4	2x5	0.1	PEM	RH	NA	2biv	NA	NA	NA	emergent	Wet Meadow	fen	womc, reference	Standing dead	ND	ND	ND	STNDEAD	NA	NA	ND	tree	ND	tree	NA	NA	ND	adventive	NA	NA	NA	NA	9	40	CUVAWetlnd2023Aug01	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd136	526	CUVA	Summit	2023-06-01	2023	2023-08-01	2023	10	4	2x5	0.1	PEM	RH	NA	2biv	NA	NA	NA	emergent	Wet Meadow	fen	womc, reference	Standing dead	ND	ND	ND	STNDEAD	NA	NA	ND	tree	ND	tree	NA	NA	ND	adventive	NA	NA	NA	NA	9	60	CUVAWetlnd2023Aug01	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd136	526	CUVA	Summit	2023-06-01	2023	2023-08-01	2023	10	4	2x5	0.1	PEM	RH	NA	2biv	NA	NA	NA	emergent	Wet Meadow	fen	womc, reference	Standing dead	ND	ND	ND	STNDEAD	NA	NA	ND	tree	ND	tree	NA	NA	ND	adventive	NA	NA	NA	NA	8	73	CUVAWetlnd2023Aug01	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd136	526	CUVA	Summit	2023-06-01	2023	2023-08-01	2023	10	4	2x5	0.1	PEM	RH	NA	2biv	NA	NA	NA	emergent	Wet Meadow	fen	womc, reference	Standing dead	ND	ND	ND	STNDEAD	NA	NA	ND	tree	ND	tree	NA	NA	ND	adventive	NA	NA	NA	NA	6	45	CUVAWetlnd2023Aug01	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd136	526	CUVA	Summit	2023-06-01	2023	2023-08-01	2023	10	4	2x5	0.1	PEM	RH	NA	2biv	NA	NA	NA	emergent	Wet Meadow	fen	womc, reference	Standing dead	ND	ND	ND	STNDEAD	NA	NA	ND	tree	ND	tree	NA	NA	ND	adventive	NA	NA	NA	NA	5	44	CUVAWetlnd2023Aug01	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd136	526	CUVA	Summit	2023-06-01	2023	2023-08-01	2023	10	4	2x5	0.1	PEM	RH	NA	2biv	NA	NA	NA	emergent	Wet Meadow	fen	womc, reference	Standing dead	ND	ND	ND	STNDEAD	NA	NA	ND	tree	ND	tree	NA	NA	ND	adventive	NA	NA	NA	NA	5	41	CUVAWetlnd2023Aug01	CUVAWetlnd2023Jun01	Event	HumanObservation

Return 2020 and later

bigtree20 <- getBigTrees(years = 2020:2024)

print_head(bigtree20)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DBH	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Quercus bicolor	SWAMP WHITE OAK	Willd.	Fagaceae	QUEBIC	7	NA	FACW+	tree	W	tree	QUBI	NA	DI	native	FACW	FACW	FACW	NA	2	62.5	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Quercus bicolor	SWAMP WHITE OAK	Willd.	Fagaceae	QUEBIC	7	NA	FACW+	tree	W	tree	QUBI	NA	DI	native	FACW	FACW	FACW	NA	4	87.7	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Quercus bicolor	SWAMP WHITE OAK	Willd.	Fagaceae	QUEBIC	7	NA	FACW+	tree	W	tree	QUBI	NA	DI	native	FACW	FACW	FACW	NA	6	95.6	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Quercus bicolor	SWAMP WHITE OAK	Willd.	Fagaceae	QUEBIC	7	NA	FACW+	tree	W	tree	QUBI	NA	DI	native	FACW	FACW	FACW	NA	6	48.0	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd199	743	CUVA	Cuyahoga	2020-06-15	2020	2020-08-04	2020	4	4	1x4	0.04	PFO	RH	NA	1ai	IIIA	Riverine	Headwater depression (1st or 2nd order)	forest	Swamp Forest	oak-maple	survey	Salix nigra	BLACK WILLOW	Marshall	Salicaceae	SLXNIG	2	NA	FACW+	tree	W	tree	SANI	NA	DI	native	OBL	OBL	OBL	NA	1	43.3	CUVAWetlnd2020Aug04	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd208	947	CUVA	Cuyahoga	2020-06-15	2020	2020-08-04	2020	4	4	2x2	0.04	PEM	DP	NA	2bvi	IB	Depression	Ground water (seasonal to permanent input)	emergent	Wet Meadow	other (specify)	survey	Standing dead	ND	ND	ND	STNDEAD	NA	NA	ND	tree	ND	tree	NA	NA	ND	adventive	NA	NA	NA	NA	1	48.9	CUVAWetlnd2020Aug04	CUVAWetlnd2020Jun15	Event	HumanObservation

Return only reference sites

ref <- getBigTrees(survey_type = c("reference", "womc, reference"))

print_head(ref)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DBH	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd157	1427	CUVA	Summit	2014-03-01	2014	2014-08-14	2014	10	4	2x5	0.1	PFO	RM	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	reference	Standing dead	ND	ND	ND	STNDEAD	NA	NA	ND	tree	ND	tree	NA	NA	ND	adventive	NA	NA	NA	NA	1	56.4	CUVAWetlnd2014Aug14	CUVAWetlnd2014Mar01	Event	HumanObservation
CUVAWetlnd157	1427	CUVA	Summit	2014-03-01	2014	2014-08-14	2014	10	4	2x5	0.1	PFO	RM	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	reference	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	1	70.2	CUVAWetlnd2014Aug14	CUVAWetlnd2014Mar01	Event	HumanObservation
CUVAWetlnd157	1427	CUVA	Summit	2014-03-01	2014	2014-08-14	2014	10	4	2x5	0.1	PFO	RM	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	reference	Acer saccharinum	SILVER MAPLE	L.	Aceraceae	ACESAC	3	NA	FACW	tree	W	tree	ACSA2	NA	DI	native	FACW	FACW	FACW	NA	2	42.8	CUVAWetlnd2014Aug14	CUVAWetlnd2014Mar01	Event	HumanObservation
CUVAWetlnd157	1427	CUVA	Summit	2014-03-01	2014	2014-08-14	2014	10	4	2x5	0.1	PFO	RM	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	reference	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	3	81.3	CUVAWetlnd2014Aug14	CUVAWetlnd2014Mar01	Event	HumanObservation
CUVAWetlnd157	1427	CUVA	Summit	2014-03-01	2014	2014-08-14	2014	10	4	2x5	0.1	PFO	RM	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	reference	Acer saccharinum	SILVER MAPLE	L.	Aceraceae	ACESAC	3	NA	FACW	tree	W	tree	ACSA2	NA	DI	native	FACW	FACW	FACW	NA	4	43.7	CUVAWetlnd2014Aug14	CUVAWetlnd2014Mar01	Event	HumanObservation
CUVAWetlnd157	1427	CUVA	Summit	2014-03-01	2014	2014-08-14	2014	10	4	2x5	0.1	PFO	RM	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	reference	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	5	48.8	CUVAWetlnd2014Aug14	CUVAWetlnd2014Mar01	Event	HumanObservation

Return only wetlands of management concern

womc <- getBigTrees(survey_type = c("womc", "womc, reference", "survey, womc"))

print_head(womc)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DBH	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Acer negundo	BOX ELDER	L.	Aceraceae	ACENEG	3	2	FAC+	tree	W	tree	ACNE2	NA	DI	native	FAC	FAC	FAC	NA	2	42.0	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	2	50.0	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	3	56.5	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	3	68.0	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	6	70.5	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	7	53.5	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation

Return only depressional wetlands

dep <- getBigTrees(hgm_class = c("Depression"))

print_head(dep)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DBH	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd196	676	CUVA	Summit	NA	NA	2015-07-16	2015	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Quercus bicolor	SWAMP WHITE OAK	Willd.	Fagaceae	QUEBIC	7	NA	FACW+	tree	W	tree	QUBI	NA	DI	native	FACW	FACW	FACW	NA	2	61.4	CUVAWetlnd2015Jul16	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	NA	NA	2015-07-16	2015	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Quercus bicolor	SWAMP WHITE OAK	Willd.	Fagaceae	QUEBIC	7	NA	FACW+	tree	W	tree	QUBI	NA	DI	native	FACW	FACW	FACW	NA	4	85.2	CUVAWetlnd2015Jul16	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	NA	NA	2015-07-16	2015	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Quercus bicolor	SWAMP WHITE OAK	Willd.	Fagaceae	QUEBIC	7	NA	FACW+	tree	W	tree	QUBI	NA	DI	native	FACW	FACW	FACW	NA	6	89.9	CUVAWetlnd2015Jul16	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	NA	NA	2015-07-16	2015	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Quercus bicolor	SWAMP WHITE OAK	Willd.	Fagaceae	QUEBIC	7	NA	FACW+	tree	W	tree	QUBI	NA	DI	native	FACW	FACW	FACW	NA	6	47.0	CUVAWetlnd2015Jul16	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd194	627	CUVA	Summit	NA	NA	2015-06-25	2015	10	4	2x5	0.1	PFO	DP	NA	1aii	IA	Depression	Surface water Depression (sheet flow, precipitation)	forest	Swamp Forest	oak-maple-ash	survey	Acer rubrum	RED MAPLE	L.	Aceraceae	ACERUB	2	3	FAC	tree	W	tree	ACRU	NA	DI	native	FAC	FAC	FAC	NA	4	40.5	CUVAWetlnd2015Jun25	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd194	627	CUVA	Summit	NA	NA	2015-06-25	2015	10	4	2x5	0.1	PFO	DP	NA	1aii	IA	Depression	Surface water Depression (sheet flow, precipitation)	forest	Swamp Forest	oak-maple-ash	survey	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	5	40.1	CUVAWetlnd2015Jun25	CUVAWetlnd2015ESS01	Event	HumanObservation

Return only forested sites

forest <- getBigTrees(dom_veg1 = "forest")

print_head(forest)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DBH	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Acer negundo	BOX ELDER	L.	Aceraceae	ACENEG	3	2	FAC+	tree	W	tree	ACNE2	NA	DI	native	FAC	FAC	FAC	NA	2	42.0	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	2	50.0	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	3	56.5	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	3	68.0	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	6	70.5	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	7	53.5	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation

Return only native species

nat <- getBigTrees(nativity = 'native')

print_head(nat)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DBH	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Acer negundo	BOX ELDER	L.	Aceraceae	ACENEG	3	2	FAC+	tree	W	tree	ACNE2	NA	DI	native	FAC	FAC	FAC	NA	2	42.0	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	2	50.0	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	3	56.5	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	3	68.0	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	6	70.5	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Populus deltoides	EASTERN COTTONWOOD	W. Bartram ex Marshall	Salicaceae	POPDEL	3	377	FAC	tree	W	tree	PODE3	NA	DI	native	FAC	FAC	FAC	NA	7	53.5	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation

Return data for a subset of plots

pts <- getBigTrees(plotID = c("1007", "1017", "1034", "1036", "1043"))

print_head(pts)

	LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DBH	EventID	PeriodID	type	basisOfRecord
1	CUVAWetlnd215	1017	CUVA	Cuyahoga	2019-06-15	2019	2019-09-23	2019	3	3	1x3	0.03	PEM	SP	NA	2bvi	IVA	Slope	Riverine	emergent	Wet Meadow	other (specify)	survey	Ulmus americana	AMERICAN ELM	L.	Ulmaceae	ULMAME	2	NA	FACW-	tree	W	tree	ULAM	NA	DI	native	FACW	FACW	FACW	NA	2	47.5	CUVAWetlnd2019Sep23	CUVAWetlnd2019Jun15	Event	HumanObservation
2	CUVAWetlnd214	1007	CUVA	Cuyahoga	2019-06-15	2019	2019-09-26	2019	4	4	2x2	0.04	PEM	SP	NA	2bvi	IVA	Slope	Riverine	emergent	Wet Meadow	other (specify)	survey	Acer rubrum	RED MAPLE	L.	Aceraceae	ACERUB	2	3	FAC	tree	W	tree	ACRU	NA	DI	native	FAC	FAC	FAC	NA	1	40.6	CUVAWetlnd2019Sep26	CUVAWetlnd2019Jun15	Event	HumanObservation
NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
NA.1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
NA.2	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
NA.3	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA

getBiomass()

This function filters biomass data by plot, year, plot types, survey types, dominant vegetation, etc.

Get Biomass data using default settings that return all records.

bmass <- getBiomass()

print_head(bmass)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	VIBI_Herb_Biomass_ID	ModuleNo	Corner	DryWt	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	20	3	2	197	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	21	8	2	237	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	22	2	2	115	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	23	3	4	69	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	24	8	4	95	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	25	9	2	222	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation

Return only 2023 data

bmass23 <- getBiomass(years = 2023)

print_head(bmass23)

	LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	VIBI_Herb_Biomass_ID	ModuleNo	Corner	DryWt	EventID	PeriodID	type	basisOfRecord
1019	CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	956	1	2	46.6	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
1020	CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	957	1	4	58.5	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
1021	CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	958	2	2	37.6	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
1022	CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	959	2	4	31.6	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
1023	CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	960	3	2	31.6	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
1024	CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	961	3	4	0.0	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation

Return 2020 and later

bmass20 <- getBiomass(years = 2020:2024)

print_head(bmass20)

	LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	VIBI_Herb_Biomass_ID	ModuleNo	Corner	DryWt	EventID	PeriodID	type	basisOfRecord
1019	CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	956	1	2	46.6	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
1020	CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	957	1	4	58.5	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
1021	CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	958	2	2	37.6	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
1022	CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	959	2	4	31.6	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
1023	CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	960	3	2	31.6	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
1024	CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	961	3	4	0.0	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation

Return only reference sites

ref <- getBiomass(survey_type = c("reference", "womc, reference"))

print_head(ref)

	LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	VIBI_Herb_Biomass_ID	ModuleNo	Corner	DryWt	EventID	PeriodID	type	basisOfRecord
53	CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	66	1	2	104	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
54	CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	67	1	4	17	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
55	CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	68	3	2	2	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
56	CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	69	2	2	29	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
57	CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	70	3	4	31	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
58	CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	71	2	4	74	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation

Return only wetlands of management concern

womc <- getBiomass(survey_type = c("womc", "womc, reference", "survey, womc"))

print_head(womc)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	VIBI_Herb_Biomass_ID	ModuleNo	Corner	DryWt	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	20	3	2	197	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	21	8	2	237	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	22	2	2	115	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	23	3	4	69	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	24	8	4	95	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	25	9	2	222	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation

Return only depressional wetlands

dep <- getBiomass(hgm_class = c("Depression"))

print_head(dep)

	LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	VIBI_Herb_Biomass_ID	ModuleNo	Corner	DryWt	EventID	PeriodID	type	basisOfRecord
237	CUVAWetlnd213	1485	CUVA	Cuyahoga	2014-03-01	2014	2014-10-27	2014	4	4	2x2	0.04	PEM	DP	NA	2aiv	IA	Depression	Surface water Depression (sheet flow, precipitation)	emergent	Marsh	cattail marsh	survey	275	1	4	1	CUVAWetlnd2014Oct27	CUVAWetlnd2014Mar01	Event	HumanObservation
238	CUVAWetlnd213	1485	CUVA	Cuyahoga	2014-03-01	2014	2014-10-27	2014	4	4	2x2	0.04	PEM	DP	NA	2aiv	IA	Depression	Surface water Depression (sheet flow, precipitation)	emergent	Marsh	cattail marsh	survey	276	4	4	8	CUVAWetlnd2014Oct27	CUVAWetlnd2014Mar01	Event	HumanObservation
239	CUVAWetlnd213	1485	CUVA	Cuyahoga	2014-03-01	2014	2014-10-27	2014	4	4	2x2	0.04	PEM	DP	NA	2aiv	IA	Depression	Surface water Depression (sheet flow, precipitation)	emergent	Marsh	cattail marsh	survey	277	3	4	34	CUVAWetlnd2014Oct27	CUVAWetlnd2014Mar01	Event	HumanObservation
240	CUVAWetlnd213	1485	CUVA	Cuyahoga	2014-03-01	2014	2014-10-27	2014	4	4	2x2	0.04	PEM	DP	NA	2aiv	IA	Depression	Surface water Depression (sheet flow, precipitation)	emergent	Marsh	cattail marsh	survey	278	4	2	53	CUVAWetlnd2014Oct27	CUVAWetlnd2014Mar01	Event	HumanObservation
334	CUVAWetlnd222	1620	CUVA	Cuyahoga	NA	NA	2015-07-06	2015	3	3	1x3	0.03	PEM	DP	NA	2aiv	IA	Depression	Surface water Depression (sheet flow, precipitation)	emergent	Marsh	cattail marsh	survey	392	3	4	35	CUVAWetlnd2015Jul06	CUVAWetlnd2015ESS01	Event	HumanObservation
335	CUVAWetlnd222	1620	CUVA	Cuyahoga	NA	NA	2015-07-06	2015	3	3	1x3	0.03	PEM	DP	NA	2aiv	IA	Depression	Surface water Depression (sheet flow, precipitation)	emergent	Marsh	cattail marsh	survey	393	2	2	96	CUVAWetlnd2015Jul06	CUVAWetlnd2015ESS01	Event	HumanObservation

Return only forested sites

forest <- getBiomass(dom_veg1 = "forest")

print_head(forest)

	LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	VIBI_Herb_Biomass_ID	ModuleNo	Corner	DryWt	EventID	PeriodID	type	basisOfRecord
61	CUVAWetlnd130	242VK2	CUVA	Summit	2009-03-01	2009	2009-07-21	2009	10	4	2x5	0.1	PFO	SP	NA	1ci	NA	NA	NA	forest	Forest Seep	skunk cabbage seep	womc	36	2	4	41	CUVAWetlnd2009Jul21	CUVAWetlnd2009Mar01	Event	HumanObservation
62	CUVAWetlnd130	242VK2	CUVA	Summit	2009-03-01	2009	2009-07-21	2009	10	4	2x5	0.1	PFO	SP	NA	1ci	NA	NA	NA	forest	Forest Seep	skunk cabbage seep	womc	37	2	2	11	CUVAWetlnd2009Jul21	CUVAWetlnd2009Mar01	Event	HumanObservation
63	CUVAWetlnd130	242VK2	CUVA	Summit	2009-03-01	2009	2009-07-21	2009	10	4	2x5	0.1	PFO	SP	NA	1ci	NA	NA	NA	forest	Forest Seep	skunk cabbage seep	womc	38	3	2	16	CUVAWetlnd2009Jul21	CUVAWetlnd2009Mar01	Event	HumanObservation
64	CUVAWetlnd130	242VK2	CUVA	Summit	2009-03-01	2009	2009-07-21	2009	10	4	2x5	0.1	PFO	SP	NA	1ci	NA	NA	NA	forest	Forest Seep	skunk cabbage seep	womc	39	3	4	11	CUVAWetlnd2009Jul21	CUVAWetlnd2009Mar01	Event	HumanObservation
65	CUVAWetlnd130	242VK2	CUVA	Summit	2009-03-01	2009	2009-07-21	2009	10	4	2x5	0.1	PFO	SP	NA	1ci	NA	NA	NA	forest	Forest Seep	skunk cabbage seep	womc	40	8	2	55	CUVAWetlnd2009Jul21	CUVAWetlnd2009Mar01	Event	HumanObservation
66	CUVAWetlnd130	242VK2	CUVA	Summit	2009-03-01	2009	2009-07-21	2009	10	4	2x5	0.1	PFO	SP	NA	1ci	NA	NA	NA	forest	Forest Seep	skunk cabbage seep	womc	41	9	2	14	CUVAWetlnd2009Jul21	CUVAWetlnd2009Mar01	Event	HumanObservation

Return data for a subset of plots

pts <- getBiomass(plotID = c("1007", "1017", "1034", "1036", "1043"))

print_head(pts)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	VIBI_Herb_Biomass_ID	ModuleNo	Corner	DryWt	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	20	3	2	197	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	21	8	2	237	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	22	2	2	115	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	23	3	4	69	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	24	8	4	95	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	25	9	2	222	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation

getHerbs()

This function filters VIBI herb data by plot, year, plot types, survey types, dominant vegetation, etc.

Get VIBI Herb data using default settings that return all records.

herb <- getHerbs()

print_head(herb)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	CovCode	MidPoint	VoucherNo	Comments_Herb	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Phalaris arundinacea	REED CANARY GRASS	L.	Poaceae	PHAARU	0	NA	FACW+	grass	PE	full	PHAR3	NA	MO	cryptogeni	FACW	FACW	FACW	NA	2	10	0.970	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Cirsium arvense	CANADA THISTLE	(L.) Scop.	Asteraceae	CIRARV	0	158	FACU	forb	PE	advent	CIAR4	NA	DI	adventive	FACU	FACU	FACU	NA	2	2	0.005	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Cirsium sp.	THISTLE	Mill.	Asteraceae	CIRSIU	NA	NA	ND	forb	ND	ND	CIRSI	NA	DI	NA	NA	NA	NA	NA	2	2	0.005	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Impatiens capensis	SPOTTED TOUCH-ME-NOT	Meerb.	Balsaminaceae	IMPCAP	2	NA	FACW	forb	AN	partial	IMCA	NA	DI	native	FACW	FACW	FACW	NA	2	2	0.005	12	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Calystegia sepium	HEDGE BINDWEED	(L.) R. Br.	Convolvulaceae	CALSEP	1	NA	FAC-	forb	PE	full	CASE13	NA	DI	native	FAC	FAC	FAC	NA	2	1	0.001	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Persicaria punctata	DOTTED SMARTWEED	(Elliott) Small	Polygonaceae	PERPUN	6	NA	OBL	forb	PE	full	POPU5	NA	DI	native	OBL	OBL	OBL	NA	2	1	0.001	2	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation

Return only 2023 data

herb23 <- getHerbs(years = 2023)

print_head(herb23)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	CovCode	MidPoint	VoucherNo	Comments_Herb	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd139	526SB3	CUVA	Summit	2023-06-01	2023	2023-08-03	2023	10	4	2x5	0.1	PFO	SP	NA	1avi	NA	NA	NA	forest	Swamp Forest	mixed forest	womc	Glyceria striata	FOWL MANNA GRASS	(Lam.) Hitchc.	Poaceae	GLYSTR	2	NA	OBL	grass	PE	shade	GLST	NA	MO	native	OBL	OBL	OBL	NA	2	8	0.625	NA	NA	CUVAWetlnd2023Aug03	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd139	526SB3	CUVA	Summit	2023-06-01	2023	2023-08-03	2023	10	4	2x5	0.1	PFO	SP	NA	1avi	NA	NA	NA	forest	Swamp Forest	mixed forest	womc	Lysimachia nummularia	MONEYWORT	L.	Primulaceae	LYSNUM	0	NA	OBL	forb	PE	advent	LYNU	NA	DI	adventive	FACW	FACW	FACW	NA	2	6	0.175	NA	NA	CUVAWetlnd2023Aug03	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd139	526SB3	CUVA	Summit	2023-06-01	2023	2023-08-03	2023	10	4	2x5	0.1	PFO	SP	NA	1avi	NA	NA	NA	forest	Swamp Forest	mixed forest	womc	Scutellaria lateriflora	MAD-DOG SKULLCAP	L.	Lamiaceae	SCULAT	3	NA	FACW+	forb	PE	partial	SCLA2	NA	DI	native	FACW	OBL	OBL	NA	2	6	0.175	NA	NA	CUVAWetlnd2023Aug03	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd139	526SB3	CUVA	Summit	2023-06-01	2023	2023-08-03	2023	10	4	2x5	0.1	PFO	SP	NA	1avi	NA	NA	NA	forest	Swamp Forest	mixed forest	womc	Phragmites australis ssp. australis	GIANT REED	(Cav.) Trin.	Poaceae	PHRAUSAU	0	352	FACW	grass	PE	full	PHAU7	NA	MO	adventive	NA	NA	NA	NA	2	3	0.015	NA	NA	CUVAWetlnd2023Aug03	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd139	526SB3	CUVA	Summit	2023-06-01	2023	2023-08-03	2023	10	4	2x5	0.1	PFO	SP	NA	1avi	NA	NA	NA	forest	Swamp Forest	mixed forest	womc	Impatiens capensis	SPOTTED TOUCH-ME-NOT	Meerb.	Balsaminaceae	IMPCAP	2	NA	FACW	forb	AN	partial	IMCA	NA	DI	native	FACW	FACW	FACW	NA	2	3	0.015	NA	NA	CUVAWetlnd2023Aug03	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd139	526SB3	CUVA	Summit	2023-06-01	2023	2023-08-03	2023	10	4	2x5	0.1	PFO	SP	NA	1avi	NA	NA	NA	forest	Swamp Forest	mixed forest	womc	Carex stipata	CROWDED SEDGE	Muhl. ex Willd.	Cyperaceae	CXSTIP	2	126	OBL	sedge	PE	partial	CAST5	NA	MO	native	OBL	OBL	OBL	NA	2	7	0.375	NA	NA	CUVAWetlnd2023Aug03	CUVAWetlnd2023Jun01	Event	HumanObservation

Return 2020 and later

herb20 <- getHerbs(years = 2020:2024)

print_head(herb20)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	CovCode	MidPoint	VoucherNo	Comments_Herb	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Crataegus pruinosa	FROSTED HAWTHORN	(H.L. Wendl.) K. Koch	Rosaceae	CRAPRU	2	174	(UPL)	sm tree	W	full	CRPR2	NA	DI	native	NA	NA	NA	NA	2	2	0.005	NA	NA	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Crataegus pruinosa	FROSTED HAWTHORN	(H.L. Wendl.) K. Koch	Rosaceae	CRAPRU	2	174	(UPL)	sm tree	W	full	CRPR2	NA	DI	native	NA	NA	NA	NA	3	2	0.005	NA	NA	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Crataegus pruinosa	FROSTED HAWTHORN	(H.L. Wendl.) K. Koch	Rosaceae	CRAPRU	2	174	(UPL)	sm tree	W	full	CRPR2	NA	DI	native	NA	NA	NA	NA	5	2	0.005	NA	NA	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	2	3	0.015	NA	NA	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	3	3	0.015	NA	NA	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	4	2	0.005	NA	NA	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation

Return only reference sites

ref <- getHerbs(survey_type = c("reference", "womc, reference"))

print_head(ref)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	CovCode	MidPoint	VoucherNo	Comments_Herb	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	Scirpus atrovirens	GREEN BULRUSH	Willd.	Cyperaceae	SCIATR	1	NA	OBL	sedge	PE	full	SCAT2	NA	MO	native	OBL	OBL	OBL	NA	1	1	0.001	NA	NA	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	Impatiens capensis	SPOTTED TOUCH-ME-NOT	Meerb.	Balsaminaceae	IMPCAP	2	NA	FACW	forb	AN	partial	IMCA	NA	DI	native	FACW	FACW	FACW	NA	1	2	0.005	NA	NA	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	Carex bromoides	BROME SEDGE	Schkuhr ex Willd.	Cyperaceae	CXBROM	7	77	FACW	sedge	PE	shade	CABR14	NA	MO	native	FACW	FACW	FACW	NA	1	4	0.035	NA	NA	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	Typha latifolia	BROAD-LEAVED CAT-TAIL	L.	Typhaceae	TYPLAT	1	NA	OBL	forb	PE	full	TYLA	NA	MO	native	OBL	OBL	OBL	NA	1	4	0.035	NA	NA	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	Pilea pumila	CANADIAN CLEARWEED	(L.) A. Gray	Urticaceae	PILPUM	2	NA	FACW	forb	AN	partial	PIPU2	NA	DI	native	FACW	FACW	FACW	NA	1	3	0.015	NA	NA	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	Solidago patula	ROUGH-LEAVED GOLDENROD	Muhl. ex Willd.	Asteraceae	SOLPAT	8	461	OBL	forb	PE	partial	SOPA2	NA	DI	native	OBL	OBL	OBL	NA	1	2	0.005	1	NA	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation

Return only wetlands of management concern

womc <- getHerbs(survey_type = c("womc", "womc, reference", "survey, womc"))

print_head(womc)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	CovCode	MidPoint	VoucherNo	Comments_Herb	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Phalaris arundinacea	REED CANARY GRASS	L.	Poaceae	PHAARU	0	NA	FACW+	grass	PE	full	PHAR3	NA	MO	cryptogeni	FACW	FACW	FACW	NA	2	10	0.970	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Cirsium arvense	CANADA THISTLE	(L.) Scop.	Asteraceae	CIRARV	0	158	FACU	forb	PE	advent	CIAR4	NA	DI	adventive	FACU	FACU	FACU	NA	2	2	0.005	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Cirsium sp.	THISTLE	Mill.	Asteraceae	CIRSIU	NA	NA	ND	forb	ND	ND	CIRSI	NA	DI	NA	NA	NA	NA	NA	2	2	0.005	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Impatiens capensis	SPOTTED TOUCH-ME-NOT	Meerb.	Balsaminaceae	IMPCAP	2	NA	FACW	forb	AN	partial	IMCA	NA	DI	native	FACW	FACW	FACW	NA	2	2	0.005	12	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Calystegia sepium	HEDGE BINDWEED	(L.) R. Br.	Convolvulaceae	CALSEP	1	NA	FAC-	forb	PE	full	CASE13	NA	DI	native	FAC	FAC	FAC	NA	2	1	0.001	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Persicaria punctata	DOTTED SMARTWEED	(Elliott) Small	Polygonaceae	PERPUN	6	NA	OBL	forb	PE	full	POPU5	NA	DI	native	OBL	OBL	OBL	NA	2	1	0.001	2	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation

Return only depressional wetlands

dep <- getHerbs(hgm_class = c("Depression"))

print_head(dep)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	CovCode	MidPoint	VoucherNo	Comments_Herb	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd216	1034	CUVA	Cuyahoga	NA	NA	2015-08-05	2015	1	1	1x1	0.01	PFO	DP	NA	1civ	IB	Depression	Ground water (seasonal to permanent input)	forest	Forest Seep	other (specify)	survey	Cryptotaenia canadensis	HONEWORT	(L.) DC.	Apiaceae	CRYCAN	3	NA	FAC	forb	PE	shade	CRCA9	NA	DI	native	FAC	FAC	FAC	NA	1	2	0.005	NA	NA	CUVAWetlnd2015Aug05	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd216	1034	CUVA	Cuyahoga	NA	NA	2015-08-05	2015	1	1	1x1	0.01	PFO	DP	NA	1civ	IB	Depression	Ground water (seasonal to permanent input)	forest	Forest Seep	other (specify)	survey	Viola sororia	COMMON BLUE VIOLET	Willd.	Violaceae	VIOSOR	1	522	FAC-	forb	PE	shade	VISO	NA	DI	native	FAC	FAC	FAC	NA	1	2	0.005	NA	NA	CUVAWetlnd2015Aug05	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd216	1034	CUVA	Cuyahoga	NA	NA	2015-08-05	2015	1	1	1x1	0.01	PFO	DP	NA	1civ	IB	Depression	Ground water (seasonal to permanent input)	forest	Forest Seep	other (specify)	survey	Impatiens capensis	SPOTTED TOUCH-ME-NOT	Meerb.	Balsaminaceae	IMPCAP	2	NA	FACW	forb	AN	partial	IMCA	NA	DI	native	FACW	FACW	FACW	NA	1	3	0.015	NA	NA	CUVAWetlnd2015Aug05	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd216	1034	CUVA	Cuyahoga	NA	NA	2015-08-05	2015	1	1	1x1	0.01	PFO	DP	NA	1civ	IB	Depression	Ground water (seasonal to permanent input)	forest	Forest Seep	other (specify)	survey	Acer saccharum	SUGAR MAPLE	Marshall	Aceraceae	ACESAR	5	4	FACU-	tree	W	tree	ACSA3	NA	DI	native	FACU	FACU	FACU	NA	1	2	0.005	NA	NA	CUVAWetlnd2015Aug05	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd216	1034	CUVA	Cuyahoga	NA	NA	2015-08-05	2015	1	1	1x1	0.01	PFO	DP	NA	1civ	IB	Depression	Ground water (seasonal to permanent input)	forest	Forest Seep	other (specify)	survey	Lindera benzoin	SPICEBUSH	(L.) Blume	Lauraceae	LINBEN	5	296	FACW-	shrub	W	shade	LIBE3	NA	DI	native	FAC	FACW	FACW	NA	1	3	0.015	NA	NA	CUVAWetlnd2015Aug05	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd216	1034	CUVA	Cuyahoga	NA	NA	2015-08-05	2015	1	1	1x1	0.01	PFO	DP	NA	1civ	IB	Depression	Ground water (seasonal to permanent input)	forest	Forest Seep	other (specify)	survey	Prunus serotina	BLACK CHERRY	Ehrh.	Rosaceae	PRUSER	3	NA	FACU	tree	W	tree	PRSE2	NA	DI	native	FACU	FACU	FACU	NA	1	1	0.001	NA	NA	CUVAWetlnd2015Aug05	CUVAWetlnd2015ESS01	Event	HumanObservation

Return only forested sites

forest <- getHerbs(dom_veg1 = "forest")

print_head(forest)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	CovCode	MidPoint	VoucherNo	Comments_Herb	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd142	970PV	CUVA	Cuyahoga	2008-03-01	2008	2008-09-24	2008	10	4	2x5	0.1	PFO	RM	NA	1axi	IIIB	Riverine	Mainstem depression (3rd order or higher)	forest	Swamp Forest	other (specify)	survey, womc	Impatiens capensis	SPOTTED TOUCH-ME-NOT	Meerb.	Balsaminaceae	IMPCAP	2	NA	FACW	forb	AN	partial	IMCA	NA	DI	native	FACW	FACW	FACW	NA	2	2	0.005	NA	NA	CUVAWetlnd2008Sep24	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd142	970PV	CUVA	Cuyahoga	2008-03-01	2008	2008-09-24	2008	10	4	2x5	0.1	PFO	RM	NA	1axi	IIIB	Riverine	Mainstem depression (3rd order or higher)	forest	Swamp Forest	other (specify)	survey, womc	Acer saccharinum	SILVER MAPLE	L.	Aceraceae	ACESAC	3	NA	FACW	tree	W	tree	ACSA2	NA	DI	native	FACW	FACW	FACW	NA	2	2	0.005	5	NA	CUVAWetlnd2008Sep24	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd142	970PV	CUVA	Cuyahoga	2008-03-01	2008	2008-09-24	2008	10	4	2x5	0.1	PFO	RM	NA	1axi	IIIB	Riverine	Mainstem depression (3rd order or higher)	forest	Swamp Forest	other (specify)	survey, womc	Pilea pumila	CANADIAN CLEARWEED	(L.) A. Gray	Urticaceae	PILPUM	2	NA	FACW	forb	AN	partial	PIPU2	NA	DI	native	FACW	FACW	FACW	NA	2	2	0.005	NA	NA	CUVAWetlnd2008Sep24	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd142	970PV	CUVA	Cuyahoga	2008-03-01	2008	2008-09-24	2008	10	4	2x5	0.1	PFO	RM	NA	1axi	IIIB	Riverine	Mainstem depression (3rd order or higher)	forest	Swamp Forest	other (specify)	survey, womc	Leersia virginica	WHITE GRASS	Willd.	Poaceae	LEEVIR	4	NA	FACW	grass	PE	shade	LEVI2	NA	MO	native	FACW	FACW	FACW	NA	2	2	0.005	NA	NA	CUVAWetlnd2008Sep24	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd142	970PV	CUVA	Cuyahoga	2008-03-01	2008	2008-09-24	2008	10	4	2x5	0.1	PFO	RM	NA	1axi	IIIB	Riverine	Mainstem depression (3rd order or higher)	forest	Swamp Forest	other (specify)	survey, womc	Lysimachia nummularia	MONEYWORT	L.	Primulaceae	LYSNUM	0	NA	OBL	forb	PE	advent	LYNU	NA	DI	adventive	FACW	FACW	FACW	NA	2	1	0.001	NA	NA	CUVAWetlnd2008Sep24	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd142	970PV	CUVA	Cuyahoga	2008-03-01	2008	2008-09-24	2008	10	4	2x5	0.1	PFO	RM	NA	1axi	IIIB	Riverine	Mainstem depression (3rd order or higher)	forest	Swamp Forest	other (specify)	survey, womc	Elymus riparius	RIVERBANK WILD RYE	Wiegand	Poaceae	ELYRIP	5	NA	FACW	grass	PE	partial	ELRI	NA	MO	native	FACW	FACW	FACW	NA	2	1	0.001	NA	NA	CUVAWetlnd2008Sep24	CUVAWetlnd2008Mar01	Event	HumanObservation

Return only native species

nat <- getHerbs(nativity = 'native')

print_head(nat)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	CovCode	MidPoint	VoucherNo	Comments_Herb	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Impatiens capensis	SPOTTED TOUCH-ME-NOT	Meerb.	Balsaminaceae	IMPCAP	2	NA	FACW	forb	AN	partial	IMCA	NA	DI	native	FACW	FACW	FACW	NA	2	2	0.005	12	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Calystegia sepium	HEDGE BINDWEED	(L.) R. Br.	Convolvulaceae	CALSEP	1	NA	FAC-	forb	PE	full	CASE13	NA	DI	native	FAC	FAC	FAC	NA	2	1	0.001	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Persicaria punctata	DOTTED SMARTWEED	(Elliott) Small	Polygonaceae	PERPUN	6	NA	OBL	forb	PE	full	POPU5	NA	DI	native	OBL	OBL	OBL	NA	2	1	0.001	2	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Toxicodendron radicans	POISON-IVY	(L.) Kuntze	Anacardiaceae	TOXRAD	1	NA	FAC	vine	W	partial	TORA2	NA	DI	native	FAC	FAC	FAC	NA	2	1	0.001	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	2	1	0.001	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Impatiens capensis	SPOTTED TOUCH-ME-NOT	Meerb.	Balsaminaceae	IMPCAP	2	NA	FACW	forb	AN	partial	IMCA	NA	DI	native	FACW	FACW	FACW	NA	3	2	0.005	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation

Return data for a subset of plots

pts <- getHerbs(plotID = c("1007", "1017", "1034", "1036", "1043"))

print_head(pts)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	CovCode	MidPoint	VoucherNo	Comments_Herb	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Phalaris arundinacea	REED CANARY GRASS	L.	Poaceae	PHAARU	0	NA	FACW+	grass	PE	full	PHAR3	NA	MO	cryptogeni	FACW	FACW	FACW	NA	2	10	0.970	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Cirsium arvense	CANADA THISTLE	(L.) Scop.	Asteraceae	CIRARV	0	158	FACU	forb	PE	advent	CIAR4	NA	DI	adventive	FACU	FACU	FACU	NA	2	2	0.005	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Cirsium sp.	THISTLE	Mill.	Asteraceae	CIRSIU	NA	NA	ND	forb	ND	ND	CIRSI	NA	DI	NA	NA	NA	NA	NA	2	2	0.005	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Impatiens capensis	SPOTTED TOUCH-ME-NOT	Meerb.	Balsaminaceae	IMPCAP	2	NA	FACW	forb	AN	partial	IMCA	NA	DI	native	FACW	FACW	FACW	NA	2	2	0.005	12	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Calystegia sepium	HEDGE BINDWEED	(L.) R. Br.	Convolvulaceae	CALSEP	1	NA	FAC-	forb	PE	full	CASE13	NA	DI	native	FAC	FAC	FAC	NA	2	1	0.001	NA	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Persicaria punctata	DOTTED SMARTWEED	(Elliott) Small	Polygonaceae	PERPUN	6	NA	OBL	forb	PE	full	POPU5	NA	DI	native	OBL	OBL	OBL	NA	2	1	0.001	2	NA	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation

getWoody()

This function filters VIBI Woody data by plot, year, plot types, survey types, dominant vegetation, etc.

Get VIBI Woody data using default settings that return all records.

woody <- getWoody()

print_head(woody)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DiamID	SortOrder	DiamVal	DBH_MidPt	Count	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Ulmus americana	AMERICAN ELM	L.	Ulmaceae	ULMAME	2	NA	FACW-	tree	W	tree	ULAM	NA	DI	native	FACW	FACW	FACW	NA	3	C5	f	10-<15	12.50	1	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Ulmus americana	AMERICAN ELM	L.	Ulmaceae	ULMAME	2	NA	FACW-	tree	W	tree	ULAM	NA	DI	native	FACW	FACW	FACW	NA	5	C4	e	5-<10	7.50	1	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	9	C3	d	2.5-<5	3.75	3	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	10	C4	e	5-<10	7.50	3	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	10	C5	f	10-<15	12.50	2	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd144	1047	CUVA	Cuyahoga	2008-03-01	2008	2008-07-30	2008	4	4	2x2	0.04	PEM	RM	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Salix nigra	BLACK WILLOW	Marshall	Salicaceae	SLXNIG	2	NA	FACW+	tree	W	tree	SANI	NA	DI	native	OBL	OBL	OBL	NA	1	C4	e	5-<10	7.50	5	CUVAWetlnd2008Jul30	CUVAWetlnd2008Mar01	Event	HumanObservation

Return only 2023 data

woody23 <- getWoody(years = 2023)

print_head(woody23)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DiamID	SortOrder	DiamVal	DBH_MidPt	Count	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	Rosa multiflora	MULTIFLORA ROSE	Thunb. ex Murray	Rosaceae	ROSMUL	0	NA	FACU	shrub	W	advent	ROMU	NA	DI	adventive	FACU	FACU	FACU	NA	2	C0	a	shrubclump	0.50	1	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	Rosa multiflora	MULTIFLORA ROSE	Thunb. ex Murray	Rosaceae	ROSMUL	0	NA	FACU	shrub	W	advent	ROMU	NA	DI	adventive	FACU	FACU	FACU	NA	2	C1	b	0-<1	0.50	1	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	Standing dead	ND	ND	ND	STNDEAD	NA	NA	ND	tree	ND	tree	NA	NA	ND	adventive	NA	NA	NA	NA	2	C0	a	shrubclump	0.50	1	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	Carpinus caroliniana	BLUE-BEECH	Walter	Betulaceae	CRPCAR	5	139	FAC	sm tree	W	shade	CACA18	NA	DI	native	FAC	FAC	FAC	NA	2	C2	c	1-<2.5	1.75	1	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	Salix amygdaloides	PEACH-LEAF WILLOW	Andersson	Salicaceae	SLXAMY	3	NA	FACW	tree	W	full	SAAM2	NA	DI	native	FACW	FACW	FACW	NA	2	C2	c	1-<2.5	1.75	2	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation
CUVAWetlnd153	398	CUVA	Cuyahoga	2023-06-01	2023	2023-08-05	2023	4	4	1x4	0.04	PEM	RH	NA	2bvi	NA	NA	NA	emergent	Wet Meadow	other (specify)	reference	Salix nigra	BLACK WILLOW	Marshall	Salicaceae	SLXNIG	2	NA	FACW+	tree	W	tree	SANI	NA	DI	native	OBL	OBL	OBL	NA	3	C4	e	5-<10	7.50	1	CUVAWetlnd2023Aug05	CUVAWetlnd2023Jun01	Event	HumanObservation

Return 2020 and later

woody20 <- getWoody(years = 2020:2024)

print_head(woody20)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DiamID	SortOrder	DiamVal	DBH_MidPt	Count	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Acer rubrum	RED MAPLE	L.	Aceraceae	ACERUB	2	3	FAC	tree	W	tree	ACRU	NA	DI	native	FAC	FAC	FAC	NA	1	C6	g	15-<20	17.50	1	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Fagus grandifolia	AMERICAN BEECH	Ehrh.	Fagaceae	FAGGRA	7	231	FACU	tree	W	tree	FAGR	NA	DI	native	FACU	FACU	FACU	NA	1	C4	e	5-<10	7.50	3	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Carpinus caroliniana	BLUE-BEECH	Walter	Betulaceae	CRPCAR	5	139	FAC	sm tree	W	shade	CACA18	NA	DI	native	FAC	FAC	FAC	NA	1	C1	b	0-<1	0.50	1	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Quercus bicolor	SWAMP WHITE OAK	Willd.	Fagaceae	QUEBIC	7	NA	FACW+	tree	W	tree	QUBI	NA	DI	native	FACW	FACW	FACW	NA	2	BIG	l	>= 40	0.00	1	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Carpinus caroliniana	BLUE-BEECH	Walter	Betulaceae	CRPCAR	5	139	FAC	sm tree	W	shade	CACA18	NA	DI	native	FAC	FAC	FAC	NA	2	C3	d	2.5-<5	3.75	3	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation
CUVAWetlnd196	676	CUVA	Summit	2020-06-15	2020	2020-08-03	2020	6	4	2x3	0.06	PFO	DP	NA	1ai	IB	Depression	Ground water (seasonal to permanent input)	forest	Swamp Forest	oak-maple	survey	Carpinus caroliniana	BLUE-BEECH	Walter	Betulaceae	CRPCAR	5	139	FAC	sm tree	W	shade	CACA18	NA	DI	native	FAC	FAC	FAC	NA	2	C4	e	5-<10	7.50	1	CUVAWetlnd2020Aug03	CUVAWetlnd2020Jun15	Event	HumanObservation

Return only reference sites

ref <- getWoody(survey_type = c("reference", "womc, reference"))

print_head(ref)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DiamID	SortOrder	DiamVal	DBH_MidPt	Count	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	Carpinus caroliniana	BLUE-BEECH	Walter	Betulaceae	CRPCAR	5	139	FAC	sm tree	W	shade	CACA18	NA	DI	native	FAC	FAC	FAC	NA	1	C2	c	1-<2.5	1.75	5	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	Carpinus caroliniana	BLUE-BEECH	Walter	Betulaceae	CRPCAR	5	139	FAC	sm tree	W	shade	CACA18	NA	DI	native	FAC	FAC	FAC	NA	3	C2	c	1-<2.5	1.75	5	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	Ribes americanum	WILD BLACK CURRANT	Mill.	Grossulariaceae	RIBAME	4	NA	FACW	shrub	W	partial	RIAM2	NA	DI	native	FACW	FACW	FACW	NA	1	C0	a	shrubclump	0.50	25	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	Ribes americanum	WILD BLACK CURRANT	Mill.	Grossulariaceae	RIBAME	4	NA	FACW	shrub	W	partial	RIAM2	NA	DI	native	FACW	FACW	FACW	NA	2	C0	a	shrubclump	0.50	15	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	Ribes americanum	WILD BLACK CURRANT	Mill.	Grossulariaceae	RIBAME	4	NA	FACW	shrub	W	partial	RIAM2	NA	DI	native	FACW	FACW	FACW	NA	4	C1	b	0-<1	0.50	15	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation
CUVAWetlnd127	241K	CUVA	Summit	2009-03-01	2009	2009-08-12	2009	4	4	2x2	0.04	PEM	SP	NA	2aiii	NA	NA	NA	emergent	Marsh	mixed emergent marsh	womc, reference	Salix discolor	PUSSY WILLOW	Muhl.	Salicaceae	SLXDIS	3	420	FACW	shrub	W	full	SADI	NA	DI	native	FACW	FACW	FACW	NA	1	C0	a	shrubclump	0.50	45	CUVAWetlnd2009Aug12	CUVAWetlnd2009Mar01	Event	HumanObservation

Return only wetlands of management concern

womc <- getWoody(survey_type = c("womc", "womc, reference", "survey, womc"))

print_head(womc)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DiamID	SortOrder	DiamVal	DBH_MidPt	Count	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Ulmus americana	AMERICAN ELM	L.	Ulmaceae	ULMAME	2	NA	FACW-	tree	W	tree	ULAM	NA	DI	native	FACW	FACW	FACW	NA	3	C5	f	10-<15	12.50	1	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Ulmus americana	AMERICAN ELM	L.	Ulmaceae	ULMAME	2	NA	FACW-	tree	W	tree	ULAM	NA	DI	native	FACW	FACW	FACW	NA	5	C4	e	5-<10	7.50	1	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	9	C3	d	2.5-<5	3.75	3	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	10	C4	e	5-<10	7.50	3	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	10	C5	f	10-<15	12.50	2	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd144	1047	CUVA	Cuyahoga	2008-03-01	2008	2008-07-30	2008	4	4	2x2	0.04	PEM	RM	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Salix nigra	BLACK WILLOW	Marshall	Salicaceae	SLXNIG	2	NA	FACW+	tree	W	tree	SANI	NA	DI	native	OBL	OBL	OBL	NA	1	C4	e	5-<10	7.50	5	CUVAWetlnd2008Jul30	CUVAWetlnd2008Mar01	Event	HumanObservation

Return only depressional wetlands

dep <- getWoody(hgm_class = c("Depression"))

print_head(dep)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DiamID	SortOrder	DiamVal	DBH_MidPt	Count	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd216	1034	CUVA	Cuyahoga	NA	NA	2015-08-05	2015	1	1	1x1	0.01	PFO	DP	NA	1civ	IB	Depression	Ground water (seasonal to permanent input)	forest	Forest Seep	other (specify)	survey	Acer saccharum	SUGAR MAPLE	Marshall	Aceraceae	ACESAR	5	4	FACU-	tree	W	tree	ACSA3	NA	DI	native	FACU	FACU	FACU	NA	1	C5	f	10-<15	12.50	1	CUVAWetlnd2015Aug05	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd216	1034	CUVA	Cuyahoga	NA	NA	2015-08-05	2015	1	1	1x1	0.01	PFO	DP	NA	1civ	IB	Depression	Ground water (seasonal to permanent input)	forest	Forest Seep	other (specify)	survey	Lindera benzoin	SPICEBUSH	(L.) Blume	Lauraceae	LINBEN	5	296	FACW-	shrub	W	shade	LIBE3	NA	DI	native	FAC	FACW	FACW	NA	1	C0	a	shrubclump	0.50	1	CUVAWetlnd2015Aug05	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd216	1034	CUVA	Cuyahoga	NA	NA	2015-08-05	2015	1	1	1x1	0.01	PFO	DP	NA	1civ	IB	Depression	Ground water (seasonal to permanent input)	forest	Forest Seep	other (specify)	survey	Standing dead	ND	ND	ND	STNDEAD	NA	NA	ND	tree	ND	tree	NA	NA	ND	adventive	NA	NA	NA	NA	1	C1	b	0-<1	0.50	1	CUVAWetlnd2015Aug05	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd222	1620	CUVA	Cuyahoga	NA	NA	2015-07-06	2015	3	3	1x3	0.03	PEM	DP	NA	2aiv	IA	Depression	Surface water Depression (sheet flow, precipitation)	emergent	Marsh	cattail marsh	survey	Salix interior	SANDBAR WILLOW	Nutt.	Salicaceae	SLXEXI	1	422	OBL	shrub	W	full	SAIN3	NA	DI	native	FACW	FACW	FACW	syn. Salix exigua	1	C0	a	shrubclump	0.50	2	CUVAWetlnd2015Jul06	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd222	1620	CUVA	Cuyahoga	NA	NA	2015-07-06	2015	3	3	1x3	0.03	PEM	DP	NA	2aiv	IA	Depression	Surface water Depression (sheet flow, precipitation)	emergent	Marsh	cattail marsh	survey	Salix interior	SANDBAR WILLOW	Nutt.	Salicaceae	SLXEXI	1	422	OBL	shrub	W	full	SAIN3	NA	DI	native	FACW	FACW	FACW	syn. Salix exigua	1	C1	b	0-<1	0.50	59	CUVAWetlnd2015Jul06	CUVAWetlnd2015ESS01	Event	HumanObservation
CUVAWetlnd222	1620	CUVA	Cuyahoga	NA	NA	2015-07-06	2015	3	3	1x3	0.03	PEM	DP	NA	2aiv	IA	Depression	Surface water Depression (sheet flow, precipitation)	emergent	Marsh	cattail marsh	survey	Salix interior	SANDBAR WILLOW	Nutt.	Salicaceae	SLXEXI	1	422	OBL	shrub	W	full	SAIN3	NA	DI	native	FACW	FACW	FACW	syn. Salix exigua	1	C2	c	1-<2.5	1.75	17	CUVAWetlnd2015Jul06	CUVAWetlnd2015ESS01	Event	HumanObservation

Return only forested sites

forest <- getWoody(dom_veg1 = "forest")

print_head(forest)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DiamID	SortOrder	DiamVal	DBH_MidPt	Count	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Acer negundo	BOX ELDER	L.	Aceraceae	ACENEG	3	2	FAC+	tree	W	tree	ACNE2	NA	DI	native	FAC	FAC	FAC	NA	1	C6	g	15-<20	17.5	1	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Acer negundo	BOX ELDER	L.	Aceraceae	ACENEG	3	2	FAC+	tree	W	tree	ACNE2	NA	DI	native	FAC	FAC	FAC	NA	2	C5	f	10-<15	12.5	1	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Acer negundo	BOX ELDER	L.	Aceraceae	ACENEG	3	2	FAC+	tree	W	tree	ACNE2	NA	DI	native	FAC	FAC	FAC	NA	2	C7	h	20-<25	22.5	1	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Acer negundo	BOX ELDER	L.	Aceraceae	ACENEG	3	2	FAC+	tree	W	tree	ACNE2	NA	DI	native	FAC	FAC	FAC	NA	2	C8	i	25-<30	27.5	2	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Acer negundo	BOX ELDER	L.	Aceraceae	ACENEG	3	2	FAC+	tree	W	tree	ACNE2	NA	DI	native	FAC	FAC	FAC	NA	2	BIG	l	>= 40	0.0	1	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd145	1049	CUVA	Cuyahoga	2008-03-01	2008	2008-09-17	2008	10	4	2x5	0.1	PFO	PFO	NA	1axi	NA	NA	NA	forest	Swamp Forest	other (specify)	womc	Acer negundo	BOX ELDER	L.	Aceraceae	ACENEG	3	2	FAC+	tree	W	tree	ACNE2	NA	DI	native	FAC	FAC	FAC	NA	3	C7	h	20-<25	22.5	1	CUVAWetlnd2008Sep17	CUVAWetlnd2008Mar01	Event	HumanObservation

Return only native species

nat <- getWoody(nativity = 'native')

print_head(nat)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DiamID	SortOrder	DiamVal	DBH_MidPt	Count	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Ulmus americana	AMERICAN ELM	L.	Ulmaceae	ULMAME	2	NA	FACW-	tree	W	tree	ULAM	NA	DI	native	FACW	FACW	FACW	NA	3	C5	f	10-<15	12.50	1	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Ulmus americana	AMERICAN ELM	L.	Ulmaceae	ULMAME	2	NA	FACW-	tree	W	tree	ULAM	NA	DI	native	FACW	FACW	FACW	NA	5	C4	e	5-<10	7.50	1	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	9	C3	d	2.5-<5	3.75	3	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	10	C4	e	5-<10	7.50	3	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	10	C5	f	10-<15	12.50	2	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd144	1047	CUVA	Cuyahoga	2008-03-01	2008	2008-07-30	2008	4	4	2x2	0.04	PEM	RM	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Salix nigra	BLACK WILLOW	Marshall	Salicaceae	SLXNIG	2	NA	FACW+	tree	W	tree	SANI	NA	DI	native	OBL	OBL	OBL	NA	1	C4	e	5-<10	7.50	5	CUVAWetlnd2008Jul30	CUVAWetlnd2008Mar01	Event	HumanObservation

Return data for a subset of plots

pts <- getWoody(plotID = c("1007", "1017", "1034", "1036", "1043"))

print_head(pts)

LocationID	FeatureID	Park	County	PeriodDate	PeriodYear	SampleDate	SampleYear	TotalMods	InternMods	PlotConfig	AreaHA	X1oPlants	X1oHGM	X2oVegID	DomVegID	HGM_ID	HGMClass	Mod_Desc	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	SurveyType	ScientificName	COMMON_NAME	AUTHORITY	FAMILY	ACRONYM	COFC	FN	WET	FORM	HABIT	SHADE	USDA_ID	OH_TORE	TYPE	OH_STATUS	EMP	MW	NCNE	NOTES	ModuleNo	DiamID	SortOrder	DiamVal	DBH_MidPt	Count	EventID	PeriodID	type	basisOfRecord
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Ulmus americana	AMERICAN ELM	L.	Ulmaceae	ULMAME	2	NA	FACW-	tree	W	tree	ULAM	NA	DI	native	FACW	FACW	FACW	NA	3	C5	f	10-<15	12.50	1	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Ulmus americana	AMERICAN ELM	L.	Ulmaceae	ULMAME	2	NA	FACW-	tree	W	tree	ULAM	NA	DI	native	FACW	FACW	FACW	NA	5	C4	e	5-<10	7.50	1	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	9	C3	d	2.5-<5	3.75	3	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	10	C4	e	5-<10	7.50	3	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd143	1043	CUVA	Cuyahoga	2008-03-01	2008	2008-08-27	2008	4	4	2x2	0.04	PEM	SP	NA	2bv	NA	NA	NA	emergent	Wet Meadow	reed canary grass meadow	womc	Fraxinus pennsylvanica	GREEN ASH	Marshall	Oleaceae	FRAPEN	3	236	FACW	tree	W	tree	FRPE	NA	DI	native	FACW	FACW	FACW	NA	10	C5	f	10-<15	12.50	2	CUVAWetlnd2008Aug27	CUVAWetlnd2008Mar01	Event	HumanObservation
CUVAWetlnd216	1034	CUVA	Cuyahoga	NA	NA	2015-08-05	2015	1	1	1x1	0.01	PFO	DP	NA	1civ	IB	Depression	Ground water (seasonal to permanent input)	forest	Forest Seep	other (specify)	survey	Acer saccharum	SUGAR MAPLE	Marshall	Aceraceae	ACESAR	5	4	FACU-	tree	W	tree	ACSA3	NA	DI	native	FACU	FACU	FACU	NA	1	C5	f	10-<15	12.50	1	CUVAWetlnd2015Aug05	CUVAWetlnd2015ESS01	Event	HumanObservation

Summary functions

joinVIBI_module()

This function summarizes module-level VIBI and filters by plot, year, and plot types. This function will return a VIBI score for each module within a site, and allows for more equal comparisons among sites with fewer than 4 modules. Averaging the module scores within a site is also possible via sumVIBI().

NOTE 1: Because the results from sumVIBI are averages rather than sums (ie the VIBI spreadsheet), their scores will be lower than other datasets that use the VIBI spreadsheet, which are straight sums.

NOTE 2: The Biomass metric assumes the area sampled is always 0.1m2. Currently, if there’s only a biomass record for a given year and no herb or woody data, those records are dropped.

NOTE 3: Metric calculations and thresholds follow INTEGRATED WETLAND ASSESSMENT PROGRAM Part 9: Field Manual for the Vegetation Index of Biotic Integrity for Wetlands v. 1.5. Pages 17 - 20 and Table 2 were most useful.

Calculate module-level VIBI scores for all sites (default).

vibi <- joinVIBI_module()

print_head(vibi)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	ModuleNo	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Carex_Score	Num_Cyper	Cyper_Score	Num_Dicot	Dicot_Score	Num_Shade	Shade_Score	Num_Hydro	Hydro_Score	Num_Hydro_reg	Num_SVP	SVP_Score	AP_Ratio	AP_Score	FQAI	FQAI_Score	FQAI_Score_FQ	cov_wt_C	Cov_Wt_C_Score_FQ	Pct_Bryo	Pct_Bryo_Score	Pct_Hydro	Pct_Hydro_Score	Pct_Hydro_reg	Pct_Hydro_Score_reg	Pct_Sens	Pct_Tol	Pct_Tol_Score	RelDen_SmTree	SmTree_Score	SubcanIV_Score	CanopyIV	CanopyIV_Score	Avg_Bmass	Biomass_Score	VIBI_Score_State	VIBI_Score_ACOEReg	VIBI_Score_FQ	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index	tot_stems_per_ha
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	1	2x2	0.04	2015	2015-08-06	CUVAWetlnd2015Aug06	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	3	3	4	NA	16	3	7	NA	8	0	9	0	NA	0.000000	0	7.717436	0	0.000000	1.865234	15.54362	0.0292969	NA	0.4140625	NA	0.4160156	NA	0.0097656	0.5566406	3	0.1000000	NA	NA	0.3224234	NA	3.0	0	9	9	15.54362	0.512	200	100	0.4160156	0.6250000	0.9609375	0.3359375	0.4355625	2000
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	2	2x2	0.04	2015	2015-08-06	CUVAWetlnd2015Aug06	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	6	10	6	NA	12	3	10	NA	8	0	7	0	NA	0.000000	0	10.818580	3	2.046449	2.220588	18.50490	0.0147059	NA	0.6176471	NA	0.6029412	NA	0.0176471	0.5558824	3	0.1250000	NA	NA	0.3428142	NA	0.0	0	19	19	20.55135	0.340	900	0	0.6029412	0.8529412	0.9852941	0.1323529	0.3427088	1600
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	3	2x2	0.04	2015	2015-08-06	CUVAWetlnd2015Aug06	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	2	3	3	NA	13	3	8	NA	7	0	8	0	NA	0.000000	0	9.045154	0	0.000000	2.069697	17.24747	0.1060606	NA	0.4696970	NA	0.4727273	NA	0.0030303	0.4090909	3	0.2222222	NA	NA	0.6756938	NA	8.5	0	9	9	17.24747	0.330	1000	0	0.4727273	0.6909091	0.8757576	0.1848485	0.4137000	1800
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	4	2x2	0.04	2015	2015-08-06	CUVAWetlnd2015Aug06	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	2	3	2	NA	17	3	8	NA	7	0	8	2	NA	0.000000	0	11.663203	3	4.158007	1.491503	12.42919	0.0980392	NA	0.0928105	NA	0.0993464	NA	0.0156863	0.8000000	0	0.0652174	NA	NA	0.1027887	NA	144.0	10	19	19	16.58720	0.765	200	0	0.0993464	0.6640523	0.8954248	0.2313725	0.1624667	4600
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	1	2x2	0.04	2019	2019-09-26	CUVAWetlnd2019Sep26	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	3	3	3	NA	22	7	11	NA	11	3	10	2	NA	0.037037	10	11.869206	3	4.673015	2.554307	21.28589	0.0000000	NA	0.5355805	NA	0.4719101	NA	0.0224719	0.4044944	3	0.0344828	NA	NA	0.3435162	NA	31.5	0	29	26	25.95891	1.335	200	0	0.4719101	0.8614232	0.9887640	0.1273408	0.4033446	2900
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	2	2x2	0.04	2019	2019-09-26	CUVAWetlnd2019Sep26	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	3	3	3	NA	12	3	6	NA	8	0	7	0	NA	0.100000	10	10.969655	3	2.424138	1.992063	16.60053	0.0000000	NA	0.4126984	NA	0.4047619	NA	0.0238095	0.4920635	3	0.0217391	NA	NA	0.5133550	NA	0.0	0	22	22	19.02467	0.630	700	0	0.4047619	0.6507937	0.9841270	0.3333333	0.4377857	4600

Calculate module-level VIBI scores for plot 124 and year 2023.

vibi124 <- joinVIBI_module(plotID = '124', years = 2023)

print_head(vibi124)

	LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	ModuleNo	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Carex_Score	Num_Cyper	Cyper_Score	Num_Dicot	Dicot_Score	Num_Shade	Shade_Score	Num_Shrub	Shrub_Score	Num_Shrub_reg	Shrub_Score_reg	Num_Hydro	Hydro_Score	Num_Hydro_reg	Hydro_Score_reg	Num_SVP	SVP_Score	AP_Ratio	AP_Score	FQAI	FQAI_Score	FQAI_Score_FQ	cov_wt_C	Cov_Wt_C_Score_FQ	Pct_Bryo	Pct_Bryo_Score	Pct_Hydro	Pct_Hydro_Score	Pct_Hydro_reg	Pct_Hydro_Score_reg	Pct_Sens	Pct_Sens_Score	Pct_Tol	Pct_Tol_Score	Pct_InvGram	Pct_InvGram_Score	RelDen_SmTree	SmTree_Score	SubcanIV	SubcanIV_Score	CanopyIV	CanopyIV_Score	Avg_Bmass	Biomass_Score	VIBI_Score_State	VIBI_Score_ACOEReg	VIBI_Score_FQ	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_button	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index	tot_stems_per_ha
1	CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	1	2x2	0.04	2023	2023-09-14	CUVAWetlnd2023Sep14	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	2	3	2	NA	7	0	5	NA	1	0	1	0	11	3	10	3	0	0	0.3750000	NA	10.96966	3	2.4241378	4.284360	35.70300	0.0000000	0	0.9976303	NA	0.9952607	NA	0.1777251	10	0.2180095	0	0	NA	0.0000000	NA	0	0	0.0000000	NA	NA	NA	19	19	38.12714	2.110	0	4500	0.2962085	0.9241706	0.9241706	0.9265403	0.0023697	0.8341943	5500
2	CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	2	2x2	0.04	2023	2023-09-14	CUVAWetlnd2023Sep14	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	3	3	3	NA	5	0	6	NA	1	0	1	0	10	3	10	3	0	0	0.2857143	NA	10.25139	3	0.6284643	2.640777	22.00647	0.1820388	10	0.8155340	NA	0.8155340	NA	0.0849515	7	0.4271845	0	0	NA	0.0169492	NA	0	0	0.2446189	NA	NA	NA	26	26	22.63494	2.060	100	5000	0.1820388	0.6941748	0.6941748	0.6966019	0.0024272	0.7063665	5900
3	CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	3	2x2	0.04	2023	2023-09-14	CUVAWetlnd2023Sep14	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	3	3	3	NA	8	0	6	NA	1	0	1	0	12	3	11	3	0	0	0.2222222	NA	11.25833	3	3.1458256	2.621483	21.84569	0.3196931	10	0.6803069	NA	0.6777494	NA	0.0895141	7	0.2506394	0	0	NA	0.0000000	NA	0	0	0.0000000	NA	NA	NA	26	26	24.99152	1.955	0	4800	0.1918159	0.6598465	0.6598465	0.6598465	0.0000000	0.5447928	5100
4	CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	4	2x2	0.04	2023	2023-09-14	CUVAWetlnd2023Sep14	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	1	0	1	NA	7	0	4	NA	1	0	1	0	10	3	9	0	0	0	0.5000000	NA	11.38420	3	3.4604989	2.860177	23.83481	0.2212389	10	0.7787611	NA	0.7734513	NA	0.1327434	10	0.2477876	0	0	NA	0.0000000	NA	0	0	0.0000000	NA	NA	NA	26	23	27.29531	2.825	0	2600	0.1327434	0.6849558	0.6849558	0.6849558	0.0000000	0.6566903	2700
NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
NA.1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA

Calculate module-level VIBI scores for plots sampled in 2023.

vibi23 <- joinVIBI_module(years = 2023)

print_head(vibi23)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	ModuleNo	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Carex_Score	Num_Cyper	Cyper_Score	Num_Dicot	Dicot_Score	Num_Shade	Shade_Score	Num_Shrub	Shrub_Score	Num_Shrub_reg	Shrub_Score_reg	Num_Hydro	Hydro_Score	Num_Hydro_reg	Hydro_Score_reg	Num_SVP	SVP_Score	AP_Ratio	AP_Score	FQAI	FQAI_Score	FQAI_Score_FQ	cov_wt_C	Cov_Wt_C_Score_FQ	Pct_Bryo	Pct_Bryo_Score	Pct_Hydro	Pct_Hydro_Score	Pct_Hydro_reg	Pct_Hydro_Score_reg	Pct_Sens	Pct_Sens_Score	Pct_Tol	Pct_Tol_Score	Pct_InvGram	Pct_InvGram_Score	RelDen_SmTree	SmTree_Score	SubcanIV	SubcanIV_Score	CanopyIV	CanopyIV_Score	Avg_Bmass	Biomass_Score	VIBI_Score_FQ	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_button	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index	tot_stems_per_ha
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	NA	2x2	0.04	NA	NA	NA	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	0.000000	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
CUVAWetlnd215	VIBIplotID	1017	CUVA	Cuyahoga	3	NA	1x3	0.03	NA	NA	NA	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	0.000000	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
CUVAWetlnd216	VIBIplotID	1034	CUVA	Cuyahoga	1	NA	1x1	0.01	NA	NA	NA	forest	Forest Seep	other (specify)	PFO	NA	DP	Depression	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	0.000000	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
CUVAWetlnd217	VIBIplotID	1036	CUVA	Cuyahoga	4	NA	2x2	0.04	NA	NA	NA	forest	Forest Seep	skunk cabbage seep	PFO	NA	SP	Slope	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	0.000000	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
CUVAWetlnd143	VIBIplotID	1043	CUVA	Cuyahoga	4	2	2x2	0.04	2023	2023-07-06	CUVAWetlnd2023Jul06	emergent	Wet Meadow	reed canary grass meadow	PEM	NA	SP	NA	0	0	0	NA	6	0	4	NA	0	0	0	0	3	0	3	0	1	NA	0.5454545	0	3.638034	0	0	0.048976	0.408133	0	NA	0.0133571	NA	0.0133571	NA	0	0	0.9109528	0	0.8637578	0	NA	NA	NA	NA	NA	NA	1795	0	0.408133	1.123	0	0	0	0.0044524	0.0240427	0.9002671	0.0276046	0.0773526	0
CUVAWetlnd143	VIBIplotID	1043	CUVA	Cuyahoga	4	3	2x2	0.04	2023	2023-07-06	CUVAWetlnd2023Jul06	emergent	Wet Meadow	reed canary grass meadow	PEM	NA	SP	NA	0	0	0	NA	0	0	0	NA	0	0	0	0	0	0	0	0	1	NA	1.0000000	0	0.000000	0	0	0.000000	0.000000	0	NA	0.0000000	NA	0.0000000	NA	0	0	0.9280303	0	0.9185606	0	0	NA	0	NA	0.6944444	NA	1009	0	0.000000	1.056	100	0	0	0.0000000	0.0047348	0.9232955	0.0047348	0.0528977	100

Calculate module-level VIBI scores for emergent wetlands.

vibi_em <- joinVIBI_module(dom_veg1 = "emergent")

print_head(vibi_em)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	ModuleNo	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Carex_Score	Num_Cyper	Cyper_Score	Num_Dicot	Dicot_Score	Num_Shade	Shade_Score	Num_Hydro	Hydro_Score	Num_Hydro_reg	Num_SVP	SVP_Score	AP_Ratio	AP_Score	FQAI	FQAI_Score	FQAI_Score_FQ	cov_wt_C	Cov_Wt_C_Score_FQ	Pct_Bryo	Pct_Bryo_Score	Pct_Hydro	Pct_Hydro_Score	Pct_Hydro_reg	Pct_Hydro_Score_reg	Pct_Sens	Pct_Tol	Pct_Tol_Score	RelDen_SmTree	SmTree_Score	SubcanIV_Score	CanopyIV	CanopyIV_Score	Avg_Bmass	Biomass_Score	VIBI_Score_State	VIBI_Score_ACOEReg	VIBI_Score_FQ	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index	tot_stems_per_ha
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	1	2x2	0.04	2015	2015-08-06	CUVAWetlnd2015Aug06	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	3	3	4	NA	16	3	7	NA	8	0	9	0	NA	0.000000	0	7.717436	0	0.000000	1.865234	15.54362	0.0292969	NA	0.4140625	NA	0.4160156	NA	0.0097656	0.5566406	3	0.1000000	NA	NA	0.3224234	NA	3.0	0	9	9	15.54362	0.512	200	100	0.4160156	0.6250000	0.9609375	0.3359375	0.4355625	2000
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	2	2x2	0.04	2015	2015-08-06	CUVAWetlnd2015Aug06	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	6	10	6	NA	12	3	10	NA	8	0	7	0	NA	0.000000	0	10.818580	3	2.046449	2.220588	18.50490	0.0147059	NA	0.6176471	NA	0.6029412	NA	0.0176471	0.5558824	3	0.1250000	NA	NA	0.3428142	NA	0.0	0	19	19	20.55135	0.340	900	0	0.6029412	0.8529412	0.9852941	0.1323529	0.3427088	1600
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	3	2x2	0.04	2015	2015-08-06	CUVAWetlnd2015Aug06	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	2	3	3	NA	13	3	8	NA	7	0	8	0	NA	0.000000	0	9.045154	0	0.000000	2.069697	17.24747	0.1060606	NA	0.4696970	NA	0.4727273	NA	0.0030303	0.4090909	3	0.2222222	NA	NA	0.6756938	NA	8.5	0	9	9	17.24747	0.330	1000	0	0.4727273	0.6909091	0.8757576	0.1848485	0.4137000	1800
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	4	2x2	0.04	2015	2015-08-06	CUVAWetlnd2015Aug06	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	2	3	2	NA	17	3	8	NA	7	0	8	2	NA	0.000000	0	11.663203	3	4.158007	1.491503	12.42919	0.0980392	NA	0.0928105	NA	0.0993464	NA	0.0156863	0.8000000	0	0.0652174	NA	NA	0.1027887	NA	144.0	10	19	19	16.58720	0.765	200	0	0.0993464	0.6640523	0.8954248	0.2313725	0.1624667	4600
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	1	2x2	0.04	2019	2019-09-26	CUVAWetlnd2019Sep26	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	3	3	3	NA	22	7	11	NA	11	3	10	2	NA	0.037037	10	11.869206	3	4.673015	2.554307	21.28589	0.0000000	NA	0.5355805	NA	0.4719101	NA	0.0224719	0.4044944	3	0.0344828	NA	NA	0.3435162	NA	31.5	0	29	26	25.95891	1.335	200	0	0.4719101	0.8614232	0.9887640	0.1273408	0.4033446	2900
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	2	2x2	0.04	2019	2019-09-26	CUVAWetlnd2019Sep26	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	3	3	3	NA	12	3	6	NA	8	0	7	0	NA	0.100000	10	10.969655	3	2.424138	1.992063	16.60053	0.0000000	NA	0.4126984	NA	0.4047619	NA	0.0238095	0.4920635	3	0.0217391	NA	NA	0.5133550	NA	0.0	0	22	22	19.02467	0.630	700	0	0.4047619	0.6507937	0.9841270	0.3333333	0.4377857	4600

Calculate module-level reference wetlands.

vibi_ref <- joinVIBI_module(survey_type = c("reference", "womc, reference"))

print_head(vibi_ref)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	ModuleNo	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Carex_Score	Num_Cyper	Cyper_Score	Num_Dicot	Num_Shade	Shade_Score	Num_Shrub	Num_Shrub_reg	Num_Hydro	Hydro_Score	Num_Hydro_reg	Hydro_Score_reg	Num_SVP	SVP_Score	AP_Ratio	AP_Score	FQAI	FQAI_Score	FQAI_Score_FQ	cov_wt_C	Cov_Wt_C_Score_FQ	Pct_Bryo	Pct_Bryo_Score	Pct_Hydro	Pct_Hydro_Score	Pct_Hydro_reg	Pct_Hydro_Score_reg	Pct_Sens	Pct_Sens_Score	Pct_Tol	Pct_Tol_Score	Pct_InvGram_Score	RelDen_SmTree	SmTree_Score	CanopyIV	CanopyIV_Score	Avg_Bmass	Biomass_Score	VIBI_Score_State	VIBI_Score_ACOEReg	VIBI_Score_FQ	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_button	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index	tot_stems_per_ha
CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	1	2x2	0.04	2018	2018-08-30	CUVAWetlnd2018Aug30	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	1	0	1	NA	7	3	NA	1	1	9	0	8	0	1	3	0.3750000	NA	9.170605	0	0.0000000	2.746342	22.88618	0.2032520	10	0.7268293	NA	0.7024390	NA	0.0000000	0	0.0471545	10	NA	0.0000000	NA	0.0000000	NA	NA	NA	23	23	22.88618	3.075	0	4600	0.2032520	0.4878049	0.5447154	0.5577236	0.0113821	0.5653154	4600
CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	2	2x2	0.04	2018	2018-08-30	CUVAWetlnd2018Aug30	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	2	3	2	NA	8	4	NA	1	1	9	0	8	0	0	0	0.5000000	NA	10.854408	3	2.1360210	2.461197	20.50998	0.2771619	10	0.6452328	NA	0.6119734	NA	0.0000000	0	0.1729490	0	NA	0.0131579	NA	0.1384623	NA	NA	NA	16	16	22.64600	2.255	200	6500	0.2771619	0.5277162	0.6053215	0.6053215	0.0000000	0.5742816	7600
CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	3	2x2	0.04	2018	2018-08-30	CUVAWetlnd2018Aug30	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	2	3	2	NA	9	4	NA	1	1	10	3	9	0	0	0	0.5000000	NA	12.124356	3	5.3108891	2.772834	23.10695	0.1756440	10	0.7423888	NA	0.6604215	NA	0.0000000	0	0.1920375	0	NA	0.0000000	NA	0.0000000	NA	NA	NA	19	16	28.41784	2.135	0	3600	0.2927400	0.5620609	0.6440281	0.6440281	0.0000000	0.6128080	4300
CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	4	2x2	0.04	2018	2018-08-30	CUVAWetlnd2018Aug30	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	1	0	1	NA	8	3	NA	1	1	9	0	8	0	0	0	0.5000000	NA	11.067972	3	2.6699295	1.974052	16.45043	0.2495010	10	0.6007984	NA	0.5708583	NA	0.0000000	0	0.1636727	0	NA	0.0000000	NA	0.0000000	NA	NA	NA	13	13	19.12036	2.505	0	2000	0.1497006	0.4071856	0.5568862	0.5568862	0.0000000	0.5342695	2900
CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	1	2x2	0.04	2023	2023-09-14	CUVAWetlnd2023Sep14	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	2	3	2	NA	7	5	NA	1	1	11	3	10	3	0	0	0.3750000	NA	10.969655	3	2.4241378	4.284360	35.70300	0.0000000	0	0.9976303	NA	0.9952607	NA	0.1777251	10	0.2180095	0	NA	0.0000000	NA	0.0000000	NA	NA	NA	19	19	38.12714	2.110	0	4500	0.2962085	0.9241706	0.9241706	0.9265403	0.0023697	0.8341943	5500
CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	2	2x2	0.04	2023	2023-09-14	CUVAWetlnd2023Sep14	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	3	3	3	NA	5	6	NA	1	1	10	3	10	3	0	0	0.2857143	NA	10.251386	3	0.6284643	2.640777	22.00647	0.1820388	10	0.8155340	NA	0.8155340	NA	0.0849515	7	0.4271845	0	NA	0.0169492	NA	0.2446189	NA	NA	NA	26	26	22.63494	2.060	100	5000	0.1820388	0.6941748	0.6941748	0.6966019	0.0024272	0.7063665	5900

Calculate module-level VIBI scores for depressional wetlands.

 vibi <- joinVIBI_module(hgm_class = "Depression")

joinVIBI_plot()

This function summarizes plot-level VIBI and filters by plot, year, and plot types. This function most closely matches the OH EPA VIBI spreadsheet calculations. Slight differences in VIBI calculations are due to differences between the species list in the tlu_WetlndSpeciesList lookup table in the HTLN_wetlands database, and the species list in the FQAI list in the spreadsheet (particularly species added to or tweaked on the spreadsheet FQAI list).

THIS FUNCTION ONLY WORKS ON PLOTS THAT HAVE 4 INTENSIVE MODULES SAMPLED. This function is intended to provide results that are comparable with other datasets that use the VIBI and are based on 4 intensive modules. For module-level VIBI scores, including for comparisons among sites with fewer than 4 intensive modules, use joinVIBI_module().

NOTE 1: The Biomass metric assumes the area sampled is always 0.1m2. Currently, if there’s only a biomass record for a given year and no herb or woody data, those records are dropped.

NOTE 2: Metric calculations and thresholds follow INTEGRATED WETLAND ASSESSMENT PROGRAM Part 9: Field Manual for the Vegetation Index of Biotic Integrity for Wetlands v. 1.5. Pages 17 - 20 and Table 2 were most useful.

Calculate plot-level VIBI scores for all sites (default).

vibi <- joinVIBI_plot()

print_head(vibi)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	InternMods	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Carex_Score	Num_Cyper	Cyper_Score	Num_Dicot	Dicot_Score	Num_Shade	Shade_Score	Num_Shrub	Shrub_Score	Shrub_Score_reg	Num_Hydro	Hydro_Score	Num_Hydro_reg	Hydro_Score_reg	Num_SVP	SVP_Score	AP_Ratio	AP_Score	FQAI	FQAI_Score	FQAI_Score_FQ	cov_wt_C	Cov_Wt_C_Score_FQ	Pct_Bryo	Pct_Bryo_Score	Pct_Hydro	Pct_Hydro_Score	Pct_Hydro_reg	Pct_Hydro_Score_reg	Pct_Sens	Pct_Sens_Score	Pct_Tol	Pct_Tol_Score	Pct_InvGram	Pct_InvGram_Score	RelDen_SmTree	SmTree_Score	SubcanIV_Score	CanopyIV	CanopyIV_Score	Avg_Bmass	Biomass_Score	VIBI_Score_State	VIBI_Score_ACOEReg	VIBI_Score_FQ	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	4	2x2	0.04	2015	2015-08-06	CUVAWetlnd2015Aug06	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	8	10	9	NA	21	7	13	NA	0	0	0	11	3	12	3	2	NA	0.0000000	0	13.576450	3	8.941126	1.8151002	15.125835	0.0667694	NA	0.3328197	NA	0.3338469	NA	0.0123267	0	0.6271186	0	0.0000000	0	0.1100000	NA	NA	0.3080317	NA	38.875	0	23	23	24.066960	0.48675	575	25	0.3338469	0.6913200	0.9250128	0.2336929	0.3083395
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	4	2x2	0.04	2019	2019-09-26	CUVAWetlnd2019Sep26	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	4	7	4	NA	30	10	12	NA	0	0	0	14	3	14	3	2	NA	0.1250000	10	14.834762	7	12.086906	2.1555844	17.963203	0.0000000	NA	0.4301299	NA	0.3963636	NA	0.0194805	0	0.5085714	3	0.0000000	0	0.0699301	NA	NA	0.2869998	NA	43.250	0	40	40	30.050110	0.96250	525	0	0.3924675	0.7576623	0.9724675	0.2161039	0.3786390
CUVAWetlnd217	VIBIplotID	1036	CUVA	Cuyahoga	4	4	2x2	0.04	2015	2015-08-06	CUVAWetlnd2015Aug06	forest	Forest Seep	skunk cabbage seep	PFO	NA	SP	Slope	1	NA	1	NA	30	NA	18	7	0	NA	NA	14	NA	13	NA	1	3	0.2051282	NA	12.847964	0	7.119910	2.8444210	23.703508	0.0000000	0	0.4667371	10	0.4667371	10	0.3611404	10	0.4896163	0	0.0000000	NA	0.0303030	10	0	0.0748468	10	NA	NA	50	50	30.823418	0.71025	125	0	0.4632172	0.5681098	0.9640971	0.4174586	0.4743516
CUVAWetlnd217	VIBIplotID	1036	CUVA	Cuyahoga	4	4	2x2	0.04	2020	2020-08-06	CUVAWetlnd2020Aug06	forest	Forest Seep	skunk cabbage seep	PFO	NA	SP	Slope	4	NA	4	NA	31	NA	23	10	0	NA	NA	19	NA	20	NA	1	3	0.1052632	NA	16.035674	3	15.089186	2.6877949	22.398291	0.0000000	0	0.4769800	10	0.4859074	10	0.3207499	10	0.5262084	0	0.0000000	NA	0.0559441	10	0	0.1044877	10	NA	NA	56	56	37.487477	1.96025	300	0	0.4272414	0.5370488	0.9094503	0.3864303	0.5748144
CUVAWetlnd143	VIBIplotID	1043	CUVA	Cuyahoga	4	4	2x2	0.04	2008	2008-08-27	CUVAWetlnd2008Aug27	emergent	Wet Meadow	reed canary grass meadow	PEM	NA	SP	NA	4	7	5	NA	16	3	7	NA	1	0	0	18	3	17	3	1	NA	0.1666667	10	9.166667	0	0.000000	0.1532847	1.277372	0.0000000	NA	0.0618978	NA	0.0656934	NA	0.0002920	0	0.9731387	0	0.8963504	0	0.3000000	NA	NA	0.4027778	NA	1558.750	0	23	23	1.277372	0.85625	250	0	0.0405839	0.0458394	0.9670073	0.0251095	0.0622969
CUVAWetlnd143	VIBIplotID	1043	CUVA	Cuyahoga	4	4	2x2	0.04	2018	2018-06-27	CUVAWetlnd2018Jun27	emergent	Wet Meadow	reed canary grass meadow	PEM	NA	SP	NA	3	3	3	NA	15	3	10	NA	0	0	0	13	3	15	3	2	NA	0.1363636	10	11.319600	3	3.298999	0.3430342	2.858618	0.0000000	NA	0.0881164	NA	0.0962005	NA	0.0040420	0	0.9469146	0	0.8555645	0	0.0000000	NA	NA	0.5276676	NA	606.250	3	25	25	6.157617	0.92775	25	0	0.0706009	0.1099434	0.9741310	0.0086230	0.0850827

Calculate plot-level VIBI scores for plot 124 and year 2023.

vibi124 <- joinVIBI_plot(plotID = '124', years = 2023)

print_head(vibi124)

	LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	InternMods	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Carex_Score	Num_Cyper	Cyper_Score	Num_Dicot	Dicot_Score	Num_Shade	Shade_Score	Num_Shrub	Shrub_Score	Num_Shrub_reg	Shrub_Score_reg	Num_Hydro	Hydro_Score	Num_Hydro_reg	Hydro_Score_reg	Num_SVP	SVP_Score	AP_Ratio	AP_Score	FQAI	FQAI_Score	FQAI_Score_FQ	cov_wt_C	Cov_Wt_C_Score_FQ	Pct_Bryo	Pct_Bryo_Score	Pct_Hydro	Pct_Hydro_Score	Pct_Hydro_reg	Pct_Hydro_Score_reg	Pct_Sens	Pct_Sens_Score	Pct_Tol	Pct_Tol_Score	Pct_InvGram	Pct_InvGram_Score	RelDen_SmTree	SmTree_Score	SubcanIV	SubcanIV_Score	CanopyIV	CanopyIV_Score	Avg_Bmass	Biomass_Score	VIBI_Score_State	VIBI_Score_ACOEReg	VIBI_Score_FQ	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_button	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index
1	CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	4	2x2	0.04	2023	2023-09-14	CUVAWetlnd2023Sep14	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	3	3	3	NA	8	0	6	NA	1	0	1	0	13	3	12	3	0	0	0.3	NA	10.84435	3	2.110883	3.093296	25.77747	0.1815642	10	0.8173184	NA	0.8145251	NA	0.122905	7	0.2826816	0	0	NA	0.0052083	NA	0	0	0.2065309	NA	NA	NA	26	26	27.88835	2.2375	25	4225	0.1955307	0.7379888	0.7379888	0.7391061	0.0011173	0.6855291
NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
NA.1	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
NA.2	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
NA.3	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
NA.4	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA

Calculate plot-level VIBI scores for plots sampled in 2023.

vibi23 <- joinVIBI_plot(years = 2023)

print_head(vibi23)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	InternMods	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Carex_Score	Num_Cyper	Cyper_Score	Num_Dicot	Dicot_Score	Num_Shade	Shade_Score	Num_Shrub	Shrub_Score	Num_Shrub_reg	Shrub_Score_reg	Num_Hydro	Hydro_Score	Num_Hydro_reg	Hydro_Score_reg	Num_SVP	SVP_Score	AP_Ratio	AP_Score	FQAI	FQAI_Score	FQAI_Score_FQ	cov_wt_C	Cov_Wt_C_Score_FQ	Pct_Bryo	Pct_Bryo_Score	Pct_Hydro	Pct_Hydro_Score	Pct_Hydro_reg	Pct_Hydro_Score_reg	Pct_Sens	Pct_Sens_Score	Pct_Tol	Pct_Tol_Score	Pct_InvGram	Pct_InvGram_Score	RelDen_SmTree	SmTree_Score	SubcanIV	SubcanIV_Score	CanopyIV	CanopyIV_Score	Avg_Bmass	Biomass_Score	VIBI_Score_State	VIBI_Score_ACOEReg	VIBI_Score_FQ	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_button	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	4	2x2	0.04	NA	NA	NA	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	0	0	0.0000000	NA	NA	NA	NA	NA	NA	NA	NA	NA
CUVAWetlnd217	VIBIplotID	1036	CUVA	Cuyahoga	4	4	2x2	0.04	NA	NA	NA	forest	Forest Seep	skunk cabbage seep	PFO	NA	SP	Slope	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	0	0	0.0000000	NA	NA	NA	NA	NA	NA	NA	NA	NA
CUVAWetlnd143	VIBIplotID	1043	CUVA	Cuyahoga	4	4	2x2	0.04	2023	2023-07-06	CUVAWetlnd2023Jul06	emergent	Wet Meadow	reed canary grass meadow	PEM	NA	SP	NA	0	0	0	NA	7	0	6	NA	0	0	0	0	5	0	5	0	2	NA	0.4285714	3	3.927922	0	0.000000	0.0213160	0.1776336	0	NA	0.0083411	NA	0.0083411	NA	0.0000000	0	0.9335032	0	0.8989805	0	0.0000000	NA	0	NA	0.6944444	NA	1230.125	0	3	3	0.1776336	1.07900	25	0	0	0.0057924	0.0213160	0.9281742	0.0141335	0.0629678
CUVAWetlnd144	VIBIplotID	1047	CUVA	Cuyahoga	4	4	2x2	0.04	2023	2023-07-07	CUVAWetlnd2023Jul07	emergent	Wet Meadow	reed canary grass meadow	PEM	NA	RM	NA	0	0	0	NA	6	0	3	NA	1	0	1	0	5	0	5	0	0	NA	0.2500000	7	4.221159	0	0.000000	0.4406546	3.6721217	0	NA	0.2690784	NA	0.2690784	NA	0.0000000	0	0.9893196	0	0.7245478	0	0.0128205	NA	0	NA	0.3553501	NA	1228.250	0	7	7	3.6721217	1.45125	75	1350	0	0.2690784	0.2692506	0.9912145	0.4246339	0.4146405
CUVAWetlnd145	VIBIplotID	1049	CUVA	Cuyahoga	10	4	2x5	0.1	2023	2023-06-29	CUVAWetlnd2023Jun29	forest	Swamp Forest	other (specify)	PFO	NA	PFO	NA	1	NA	1	NA	14	NA	13	3	0	NA	0	NA	7	NA	7	NA	1	3	0.1111111	NA	11.354555	0	3.386388	1.5030510	12.5254247	0	0	0.1509332	7	0.0209978	0	0.1337042	7	0.6426777	0	0.0251256	NA	0.1571429	7	0	0	0.2769719	0	NA	NA	27	20	15.9118130	1.39300	320	0	0	0.0197416	0.3867552	0.8883704	0.5509691	0.3627548
CUVAWetlnd218	VIBIplotID	1058	CUVA	Cuyahoga	4	4	2x2	0.04	NA	NA	NA	forest	Forest Seep	skunk cabbage-sedge seep	PFO	NA	SP	Slope	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	0	0	0.0000000	NA	NA	NA	NA	NA	NA	NA	NA	NA

Calculate plot-level VIBI scores for emergent wetlands.

vibi_em <- joinVIBI_plot(dom_veg1 = "emergent")

print_head(vibi_em)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	InternMods	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Carex_Score	Num_Cyper	Cyper_Score	Num_Dicot	Dicot_Score	Num_Shade	Shade_Score	Num_Shrub	Shrub_Score	Num_Shrub_reg	Shrub_Score_reg	Num_Hydro	Hydro_Score	Num_Hydro_reg	Hydro_Score_reg	Num_SVP	SVP_Score	AP_Ratio	AP_Score	FQAI	FQAI_Score	FQAI_Score_FQ	cov_wt_C	Cov_Wt_C_Score_FQ	Pct_Bryo	Pct_Bryo_Score	Pct_Hydro	Pct_Hydro_Score	Pct_Hydro_reg	Pct_Hydro_Score_reg	Pct_Sens	Pct_Tol	Pct_Tol_Score	Pct_InvGram	RelDen_SmTree	SmTree_Score	SubcanIV_Score	CanopyIV	CanopyIV_Score	Avg_Bmass	Biomass_Score	VIBI_Score_State	VIBI_Score_ACOEReg	VIBI_Score_FQ	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	4	2x2	0.04	2015	2015-08-06	CUVAWetlnd2015Aug06	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	8	10	9	NA	21	7	13	NA	0	0	0	0	11	3	12	3	2	NA	0.0000000	0	13.576450	3	8.941126	1.8151002	15.1258346	0.0667694	NA	0.3328197	NA	0.3338469	NA	0.0123267	0.6271186	0	0.0000000	0.1100000	NA	NA	0.3080317	NA	38.875	0	23	23	24.0669601	0.48675	575	25	0.3338469	0.6913200	0.9250128	0.2336929	0.3083395
CUVAWetlnd214	VIBIplotID	1007	CUVA	Cuyahoga	4	4	2x2	0.04	2019	2019-09-26	CUVAWetlnd2019Sep26	emergent	Wet Meadow	other (specify)	PEM	NA	SP	Slope	4	7	4	NA	30	10	12	NA	0	0	0	0	14	3	14	3	2	NA	0.1250000	10	14.834762	7	12.086906	2.1555844	17.9632035	0.0000000	NA	0.4301299	NA	0.3963636	NA	0.0194805	0.5085714	3	0.0000000	0.0699301	NA	NA	0.2869998	NA	43.250	0	40	40	30.0501095	0.96250	525	0	0.3924675	0.7576623	0.9724675	0.2161039	0.3786390
CUVAWetlnd143	VIBIplotID	1043	CUVA	Cuyahoga	4	4	2x2	0.04	2008	2008-08-27	CUVAWetlnd2008Aug27	emergent	Wet Meadow	reed canary grass meadow	PEM	NA	SP	NA	4	7	5	NA	16	3	7	NA	1	0	0	0	18	3	17	3	1	NA	0.1666667	10	9.166667	0	0.000000	0.1532847	1.2773723	0.0000000	NA	0.0618978	NA	0.0656934	NA	0.0002920	0.9731387	0	0.8963504	0.3000000	NA	NA	0.4027778	NA	1558.750	0	23	23	1.2773723	0.85625	250	0	0.0405839	0.0458394	0.9670073	0.0251095	0.0622969
CUVAWetlnd143	VIBIplotID	1043	CUVA	Cuyahoga	4	4	2x2	0.04	2018	2018-06-27	CUVAWetlnd2018Jun27	emergent	Wet Meadow	reed canary grass meadow	PEM	NA	SP	NA	3	3	3	NA	15	3	10	NA	0	0	0	0	13	3	15	3	2	NA	0.1363636	10	11.319600	3	3.298999	0.3430342	2.8586185	0.0000000	NA	0.0881164	NA	0.0962005	NA	0.0040420	0.9469146	0	0.8555645	0.0000000	NA	NA	0.5276676	NA	606.250	3	25	25	6.1576173	0.92775	25	0	0.0706009	0.1099434	0.9741310	0.0086230	0.0850827
CUVAWetlnd143	VIBIplotID	1043	CUVA	Cuyahoga	4	4	2x2	0.04	2023	2023-07-06	CUVAWetlnd2023Jul06	emergent	Wet Meadow	reed canary grass meadow	PEM	NA	SP	NA	0	0	0	NA	7	0	6	NA	0	0	0	0	5	0	5	0	2	NA	0.4285714	3	3.927922	0	0.000000	0.0213160	0.1776336	0.0000000	NA	0.0083411	NA	0.0083411	NA	0.0000000	0.9335032	0	0.8989805	0.0000000	NA	NA	0.6944444	NA	1230.125	0	3	3	0.1776336	1.07900	25	0	0.0057924	0.0213160	0.9281742	0.0141335	0.0629678
CUVAWetlnd144	VIBIplotID	1047	CUVA	Cuyahoga	4	4	2x2	0.04	2008	2008-07-30	CUVAWetlnd2008Jul30	emergent	Wet Meadow	reed canary grass meadow	PEM	NA	RM	NA	0	0	1	NA	5	0	1	NA	3	7	3	7	6	0	6	0	0	NA	0.1250000	10	7.505554	0	0.000000	0.2513886	2.0949053	0.0000000	NA	0.1537359	NA	0.1537359	NA	0.0003584	0.9672102	0	0.8265544	0.0888889	NA	NA	0.2032364	NA	942.500	0	17	17	2.0949053	1.39525	575	5050	0.1535567	0.1537359	0.9994625	0.2762946	0.3998493

Calculate plot-level reference wetlands.

vibi_ref <- joinVIBI_plot(survey_type = c("reference", "womc, reference"))

print_head(vibi_ref)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	InternMods	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Carex_Score	Num_Cyper	Cyper_Score	Num_Dicot	Dicot_Score	Num_Shade	Shade_Score	Num_Shrub	Shrub_Score	Num_Shrub_reg	Shrub_Score_reg	Num_Hydro	Hydro_Score	Num_Hydro_reg	Hydro_Score_reg	Num_SVP	SVP_Score	AP_Ratio	AP_Score	FQAI	FQAI_Score	FQAI_Score_FQ	cov_wt_C	Cov_Wt_C_Score_FQ	Pct_Bryo	Pct_Bryo_Score	Pct_Hydro	Pct_Hydro_Score	Pct_Hydro_reg	Pct_Hydro_Score_reg	Pct_Sens	Pct_Sens_Score	Pct_Tol	Pct_Tol_Score	Pct_InvGram	Pct_InvGram_Score	RelDen_SmTree	SmTree_Score	SubcanIV	SubcanIV_Score	CanopyIV	CanopyIV_Score	Avg_Bmass	Biomass_Score	VIBI_Score_State	VIBI_Score_ACOEReg	VIBI_Score_FQ	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_button	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index
CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	4	2x2	0.04	2018	2018-08-30	CUVAWetlnd2018Aug30	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	2	3	2	NA	11	3	5	NA	1	0	1	0	11	3	10	3	1	3	0.3333333	NA	12.39355	3	5.983867	2.493480	20.77900	0.2256770	10	0.6800401	NA	0.6399198	NA	0.0000000	0	0.1359077	3	0.0000000	NA	0.0051546	NA	0.0000000	0	0.1125583	NA	NA	NA	28	28	26.76287	2.49250	50	4175	0.2256770	0.4924774	0.5827482	0.5867603	0.0035105	0.5697131
CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	4	2x2	0.04	2023	2023-09-14	CUVAWetlnd2023Sep14	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	3	3	3	NA	8	0	6	NA	1	0	1	0	13	3	12	3	0	0	0.3000000	NA	10.84435	3	2.110883	3.093296	25.77747	0.1815642	10	0.8173184	NA	0.8145251	NA	0.1229050	7	0.2826816	0	0.0000000	NA	0.0052083	NA	0.0000000	0	0.2065309	NA	NA	NA	26	26	27.88835	2.23750	25	4225	0.1955307	0.7379888	0.7379888	0.7391061	0.0011173	0.6855291
CUVAWetlnd157	VIBIplotID	1427	CUVA	Summit	10	4	2x5	0.1	2014	2014-08-14	CUVAWetlnd2014Aug14	forest	Swamp Forest	other (specify)	PFO	NA	RM	NA	3	NA	3	NA	11	NA	12	3	0	NA	0	NA	12	NA	12	NA	1	3	0.0769231	NA	12.24745	0	5.618622	2.398337	19.98614	0.0000000	0	0.1422037	3	0.1422037	3	0.0020790	0	0.2536383	7	0.0000000	NA	0.0914286	10	0.0000000	0	0.1930177	3	NA	NA	29	29	25.60476	0.60125	500	0	0.0000000	0.1417879	0.8270270	0.9941788	0.1663202	0.4943048
CUVAWetlnd157	VIBIplotID	1427	CUVA	Summit	10	4	2x5	0.1	2018	2018-08-30	CUVAWetlnd2018Aug30	forest	Swamp Forest	other (specify)	PFO	NA	RM	NA	3	NA	3	NA	23	NA	19	7	2	NA	2	NA	19	NA	19	NA	1	3	0.1428571	NA	16.16667	3	15.416667	2.672800	22.27333	0.0037295	0	0.2053705	7	0.1994033	7	0.0049727	0	0.2038787	7	0.0000000	NA	0.1684211	7	0.0000000	0	0.2532338	0	NA	NA	34	34	37.69000	1.00550	600	0	0.0000000	0.1981601	0.9378419	0.9863252	0.0522128	0.5081407
CUVAWetlnd157	VIBIplotID	1427	CUVA	Summit	10	4	2x5	0.1	2023	2023-09-08	CUVAWetlnd2023Sep08	forest	Swamp Forest	other (specify)	PFO	NA	RM	NA	5	NA	5	NA	20	NA	20	7	2	NA	2	NA	18	NA	18	NA	1	3	0.1304348	NA	15.81139	3	14.528471	2.498138	20.81781	0.0037244	0	0.1629423	7	0.1601490	7	0.0167598	0	0.2597765	7	0.0009311	NA	0.1619048	7	0.0000000	0	0.2238466	0	NA	NA	34	34	35.34629	1.34250	660	0	0.0000000	0.1573557	0.8985102	0.9906890	0.0931099	0.5201993
CUVAWetlnd127	VIBIplotID	241K	CUVA	Summit	4	4	2x2	0.04	2009	2009-08-12	CUVAWetlnd2009Aug12	emergent	Marsh	mixed emergent marsh	PEM	NA	SP	NA	3	3	6	NA	29	10	15	NA	5	10	5	10	31	10	30	7	3	NA	0.1250000	10	19.98350	7	24.958760	2.573407	21.44506	0.3693444	NA	0.5547553	NA	0.5545706	NA	0.2795937	10	0.1399815	10	0.0332410	7	0.0000000	NA	0.0826535	NA	0.3504653	NA	342.5	7	84	81	46.40382	1.35375	500	9500	0.0000000	0.5431210	0.5691597	0.6084949	0.0345337	0.3196227

Calculate plot-level VIBI scores for depressional wetlands.

 vibi <- joinVIBI_plot(hgm_class = "Depression")

sumVIBI()

This function summarizes plot-level VIBI by averaging module-level VIBI scores, and filters by plot, year, and plot types. Note that the Biomass metric assumes the area sampled is always 0.1m2. Metric calculations and thresholds follow INTEGRATED WETLAND ASSESSMENT PROGRAM Part 9: Field Manual for the Vegetation Index of Biotic Integrity for Wetlands v. 1.5. Pages 17 - 20 and Table 2 were most useful. For plot-level VIBI scores that are comparable with OH VIBI scores from other sites, use joinVIBI_plot(). Note however, that the joinVIBI_plot() only rates sites with 4 intensive modules. This function allows sites with fewer than 4 modules to be assessed on the same scale as sites with 4 modules. The VIBI scores with this function will be lower than the original VIBI spreadsheet approach, because the VIBI spreadsheet sums across the 4 modules, rather than averages. VIBI scores are applied after the module-level metrics are averaged to a plot-level value.

Average module-level to get plot-level VIBI scores for all sites (default).

vibi <- sumVIBI()

print_head(vibi)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Num_Cyper	Num_Dicot	Num_Shade	Num_Shrub	Num_Shrub_reg	Num_Hydro	Num_Hydro_reg	Num_SVP	AP_Ratio	FQAI	cov_wt_C	Pct_Bryo	Pct_Hydro	Pct_Hydro_reg	Pct_Sens	Pct_Tol	Pct_InvGram	RelDen_SmTree	SubcanIV	CanopyIV	Avg_Bmass	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_button	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index	tot_stems_per_ha	Carex_Score	Cyper_Score	Dicot_Score	Shade_Score	Shrub_Score_reg	Shrub_Score	Hydro_Score_reg	Hydro_Score	AP_Score	SVP_Score	FQAI_Score	FQAI_Score_FQ	Cov_Wt_C_Score_FQ	Pct_Bryo_Score	Pct_Hydro_Score_reg	Pct_Hydro_Score	Pct_Sens_Score	Pct_Tol_Score	Pct_InvGram_Score	SmTree_Score	SubcanIV_Score	CanopyIV_Score	Biomass_Score
CUVAWetlnd127	VIBIplotID	241K	CUVA	Summit	4	2x2	0.04	2009	2009-08-12	CUVAWetlnd2009Aug12	emergent	Marsh	mixed emergent marsh	PEM	NA	SP	NA	2.5000000	4.2500000	17.25000	12.00000	4.250000	4.250000	22.50000	22.25000	2.7500000	0.1502691	15.90538	2.431055	0.3919628	0.5235036	0.5233127	0.2640017	0.1615855	0.0421814	0.0000000	0.1533381	0.1075921	342.5000	1.3537500	500.0000	9500.000	0.0000000	0.5099212	0.5376300	0.5818721	0.0387403	0.3320396	10250.000	3	NA	NA	NA	NA	NA	7	7	10	NA	7	14.763441	20.25879	NA	NA	NA	10	10	7	NA	NA	NA	7
CUVAWetlnd127	VIBIplotID	241K	CUVA	Summit	4	2x2	0.04	2018	2018-08-20	CUVAWetlnd2018Aug20	emergent	Marsh	mixed emergent marsh	PEM	NA	SP	NA	2.0000000	3.2500000	21.50000	15.25000	4.500000	4.500000	25.25000	24.75000	3.0000000	0.0988966	18.68453	2.900271	0.1046577	0.7683991	0.7674984	0.1905352	0.3672326	0.0336593	0.0008929	0.0853120	0.1064807	108.1250	2.3402500	125.0000	31825.000	0.0000000	0.7040803	0.7440410	0.8192249	0.0705914	0.6606180	33000.000	3	NA	7	NA	NA	NA	7	7	10	NA	7	21.711320	24.16892	NA	NA	NA	10	7	7	NA	NA	NA	10
CUVAWetlnd127	VIBIplotID	241K	CUVA	Summit	4	2x2	0.04	2023	2023-07-21	CUVAWetlnd2023Jul21	emergent	Marsh	mixed emergent marsh	PEM	NA	SP	NA	1.7500000	2.2500000	21.75000	14.50000	4.500000	4.500000	25.25000	25.25000	2.2500000	0.1074883	18.57529	3.622008	0.0000000	0.8120342	0.8120342	0.3438115	0.3326858	0.0109246	0.0062358	0.0970547	0.0757716	78.6250	3.1142500	175.0000	24275.000	0.0000000	0.7628657	0.8114002	0.9467379	0.1353377	0.7106056	27225.000	NA	NA	7	NA	NA	NA	7	7	10	NA	7	21.438227	30.18340	NA	NA	NA	10	7	10	NA	NA	NA	0
CUVAWetlnd128	VIBIplotID	241VK4	CUVA	Summit	3	1x3	0.03	2009	2009-08-06	CUVAWetlnd2009Aug06	emergent	Marsh	mixed emergent marsh	PEM	NA	RH	NA	1.0000000	2.0000000	25.66667	16.66667	4.333333	3.333333	22.33333	22.00000	0.6666667	0.1991384	15.19097	1.545935	0.0000000	0.7115493	0.6418893	0.0300696	0.7754918	0.1725131	0.0000000	0.1535059	0.0000000	135.0000	0.4873333	0.0000	5400.000	0.0008795	0.6149691	0.7893692	0.9323626	0.1075956	0.6154757	6066.667	0	NA	10	NA	7	NA	7	7	10	NA	7	12.977421	12.88279	NA	NA	NA	3	0	3	NA	NA	NA	10
CUVAWetlnd128	VIBIplotID	241VK4	CUVA	Summit	3	1x3	0.03	2018	2018-08-16	CUVAWetlnd2018Aug16	emergent	Marsh	mixed emergent marsh	PEM	NA	RH	NA	0.6666667	0.6666667	26.00000	16.33333	3.333333	3.000000	19.33333	19.33333	1.3333333	0.1114969	15.32317	2.759290	0.0000000	0.6142610	0.6340237	0.1865763	0.5499787	0.0055558	0.0049020	0.0391510	0.1444370	368.6667	1.3750000	300.0000	6533.333	0.0000000	0.4184648	0.6441425	0.7352147	0.1226581	0.4894483	9166.667	0	NA	10	NA	7	7	3	3	10	NA	7	13.307935	22.99408	NA	NA	NA	10	3	10	NA	NA	NA	7
CUVAWetlnd128	VIBIplotID	241VK4	CUVA	Summit	3	1x3	0.03	2023	2023-07-14	CUVAWetlnd2023Jul14	emergent	Marsh	mixed emergent marsh	PEM	NA	RH	NA	1.0000000	1.3333333	24.00000	15.33333	2.666667	2.000000	20.66667	18.66667	1.3333333	0.0867521	13.82791	2.853331	0.0000000	0.8016056	0.7753583	0.2295320	0.6017046	0.0083933	0.0000000	0.0103216	0.0888524	146.8333	2.6750000	633.3333	4200.000	0.0000000	0.5231845	0.6529332	0.7452925	0.0894973	0.6242714	7366.667	0	NA	7	NA	3	NA	3	NA	10	NA	3	9.569784	23.77776	NA	NA	NA	10	0	10	NA	NA	NA	10

Average module-level to get plot-level VIBI scores for plot 124 and year 2023.

vibi124 <- sumVIBI(plotID = '124', years = 2023)

print_head(vibi124)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Num_Cyper	Num_Dicot	Num_Shade	Num_Shrub	Num_Shrub_reg	Num_Hydro	Num_Hydro_reg	Num_SVP	AP_Ratio	FQAI	cov_wt_C	Pct_Bryo	Pct_Hydro	Pct_Hydro_reg	Pct_Sens	Pct_Tol	Pct_InvGram	RelDen_SmTree	SubcanIV	CanopyIV	Avg_Bmass	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_button	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index	tot_stems_per_ha	Carex_Score	Cyper_Score	Dicot_Score	Shade_Score	Shrub_Score_reg	Shrub_Score	Hydro_Score_reg	Hydro_Score	AP_Score	SVP_Score	FQAI_Score	FQAI_Score_FQ	Cov_Wt_C_Score_FQ	Pct_Bryo_Score	Pct_Hydro_Score_reg	Pct_Hydro_Score	Pct_Sens_Score	Pct_Tol_Score	Pct_InvGram_Score	SmTree_Score	SubcanIV_Score	CanopyIV_Score	Biomass_Score
CUVAWetlnd152	VIBIplotID	124	CUVA	Summit	4	2x2	0.04	2023	2023-09-14	CUVAWetlnd2023Sep14	shrub	Shrub Swamp	buttonbush swamp	PSS	NA	DP	NA	2.25	2.25	6.75	5.25	1	1	10.75	10	0	0.3457341	10.96589	3.101699	0.1807427	0.8180581	0.8154988	0.1212335	0.2859052	0	0.0042373	0	0.0611547	NaN	2.2375	25	4225	0.2007016	0.7407869	0.7407869	0.7419861	0.0011992	0.685511	4800	3	NA	0	NA	0	0	3	3	NA	0	3	2.414732	25.84749	10	NA	NA	7	0	NA	NA	0	NA	NA
NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA
NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA

Calculate module-level to get plot-level VIBI scores for plots sampled in 2023.

vibi23 <- sumVIBI(years = 2023)

print_head(vibi23)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Num_Cyper	Num_Dicot	Num_Shade	Num_Shrub	Num_Shrub_reg	Num_Hydro	Num_Hydro_reg	Num_SVP	AP_Ratio	FQAI	cov_wt_C	Pct_Bryo	Pct_Hydro	Pct_Hydro_reg	Pct_Sens	Pct_Tol	Pct_InvGram	RelDen_SmTree	SubcanIV	CanopyIV	Avg_Bmass	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_button	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index	tot_stems_per_ha	Carex_Score	Cyper_Score	Dicot_Score	Shade_Score	Shrub_Score_reg	Shrub_Score	Hydro_Score_reg	Hydro_Score	AP_Score	SVP_Score	FQAI_Score	FQAI_Score_FQ	Cov_Wt_C_Score_FQ	Pct_Bryo_Score	Pct_Hydro_Score_reg	Pct_Hydro_Score	Pct_Sens_Score	Pct_Tol_Score	Pct_InvGram_Score	SmTree_Score	SubcanIV_Score	CanopyIV_Score	Biomass_Score
CUVAWetlnd127	VIBIplotID	241K	CUVA	Summit	4	2x2	0.04	2023	2023-07-21	CUVAWetlnd2023Jul21	emergent	Marsh	mixed emergent marsh	PEM	NA	SP	NA	1.75	2.250000	21.75	14.50000	4.500000	4.50	25.25000	25.25000	2.250000	0.1074883	18.575291	3.622008	0.0000000	0.8120342	0.8120342	0.3438115	0.3326858	0.0109246	0.0062358	0.0970547	0.0757716	78.6250	3.11425	175.0000	24275	0.0000000	0.7628657	0.8114002	0.9467379	0.1353377	0.7106056	27225.000	NA	NA	7	NA	NA	NA	7	7	10	NA	7	21.438227	30.18340	NA	NA	NA	10	7	10	NA	NA	NA	0
CUVAWetlnd128	VIBIplotID	241VK4	CUVA	Summit	3	1x3	0.03	2023	2023-07-14	CUVAWetlnd2023Jul14	emergent	Marsh	mixed emergent marsh	PEM	NA	RH	NA	1.00	1.333333	24.00	15.33333	2.666667	2.00	20.66667	18.66667	1.333333	0.0867521	13.827913	2.853331	0.0000000	0.8016056	0.7753583	0.2295320	0.6017046	0.0083933	0.0000000	0.0103216	0.0888524	146.8333	2.67500	633.3333	4200	0.0000000	0.5231845	0.6529332	0.7452925	0.0894973	0.6242714	7366.667	0	NA	7	NA	3	NA	3	NA	10	NA	3	9.569784	23.77776	NA	NA	NA	10	0	10	NA	NA	NA	10
CUVAWetlnd129	VIBIplotID	242VK1	CUVA	Summit	4	2x2	0.04	2023	2023-07-13	CUVAWetlnd2023Jul13	emergent	Marsh	cattail marsh	PEM	NA	SP	NA	0.00	0.000000	7.75	5.75000	1.750000	1.25	8.50000	7.75000	1.000000	0.1634921	7.675193	1.376175	0.0000000	0.5717307	0.5519451	0.0945926	0.8671791	0.5519781	0.0000000	0.0560819	0.0105431	964.5000	1.77000	25.0000	3350	0.0000000	0.5038352	0.5402256	0.9513960	0.4009291	0.8363305	4025.000	0	NA	0	NA	NA	NA	0	0	10	NA	0	0.000000	11.46813	NA	NA	NA	3	0	0	NA	NA	NA	0
CUVAWetlnd130	VIBIplotID	242VK2	CUVA	Summit	10	2x5	0.1	2023	2023-07-13	CUVAWetlnd2023Jul13	forest	Forest Seep	skunk cabbage seep	PFO	NA	SP	NA	3.75	4.750000	32.00	23.50000	2.250000	2.25	24.00000	23.00000	1.500000	0.1125665	17.860436	1.846337	0.0000000	0.2866511	0.2946196	0.1635830	0.7057901	0.0200088	0.0303981	0.0519512	0.1257762	NaN	3.45925	8900.0000	600	0.0000000	0.2845154	0.6542178	0.8449151	0.3087706	0.5194199	13925.000	NA	NA	NA	10	NA	NA	NA	NA	NA	NA	3	19.651090	15.38614	0	10	10	7	0	NA	10	3	10	NA
CUVAWetlnd131	VIBIplotID	365BM2	CUVA	Summit	4	2x2	0.04	2023	2023-08-24	CUVAWetlnd2023Aug24	emergent	Wet Meadow	other (specify)	PEM	NA	DP	NA	2.80	4.000000	21.60	10.20000	4.000000	4.00	26.40000	26.00000	1.800000	0.0677257	16.619521	2.663347	0.0000000	0.7861367	0.7853805	0.1782745	0.6597489	0.0980395	0.0025641	0.0316875	0.2248700	548.6000	2.94900	160.0000	13260	0.0000000	0.7282285	0.7839376	0.9408671	0.1572184	0.7284573	15400.000	3	NA	7	NA	7	7	7	7	10	NA	7	16.548802	22.19456	NA	NA	NA	10	0	7	NA	NA	NA	3
CUVAWetlnd132	VIBIplotID	365BM3	CUVA	Summit	4	2x2	0.04	2023	2023-09-06	CUVAWetlnd2023Sep06	emergent	Marsh	mixed emergent marsh	PEM	NA	DP	NA	4.00	4.000000	20.25	13.75000	2.500000	2.50	26.00000	25.25000	1.000000	0.1016171	16.760229	2.341258	0.0119048	0.5652374	0.5630622	0.2162668	0.5424945	0.2344392	0.0094535	0.0829423	0.1431222	1031.6250	2.69375	1275.0000	4325	0.1442432	0.4750141	0.4999853	0.8988490	0.3760471	0.7201298	7200.000	7	NA	7	NA	NA	NA	7	7	10	NA	7	16.900572	19.51048	NA	NA	NA	10	3	3	NA	NA	NA	0

Calculate module-level to get plot-level VIBI scores for emergent wetlands.

vibi_em <- sumVIBI(dom_veg1 = "emergent")

print_head(vibi_em)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Num_Cyper	Num_Dicot	Num_Shade	Num_Shrub	Num_Shrub_reg	Num_Hydro	Num_Hydro_reg	Num_SVP	AP_Ratio	FQAI	cov_wt_C	Pct_Bryo	Pct_Hydro	Pct_Hydro_reg	Pct_Sens	Pct_Tol	Pct_InvGram	RelDen_SmTree	SubcanIV	CanopyIV	Avg_Bmass	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_button	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index	tot_stems_per_ha	Carex_Score	Cyper_Score	Dicot_Score	Shade_Score	Shrub_Score_reg	Shrub_Score	Hydro_Score_reg	Hydro_Score	AP_Score	SVP_Score	FQAI_Score	FQAI_Score_FQ	Cov_Wt_C_Score_FQ	Pct_Bryo_Score	Pct_Hydro_Score_reg	Pct_Hydro_Score	Pct_Sens_Score	Pct_Tol_Score	Pct_InvGram_Score	SmTree_Score	SubcanIV_Score	CanopyIV_Score	Biomass_Score
CUVAWetlnd127	VIBIplotID	241K	CUVA	Summit	4	2x2	0.04	2009	2009-08-12	CUVAWetlnd2009Aug12	emergent	Marsh	mixed emergent marsh	PEM	NA	SP	NA	2.5000000	4.2500000	17.25000	12.00000	4.250000	4.250000	22.50000	22.25000	2.7500000	0.1502691	15.90538	2.431055	0.3919628	0.5235036	0.5233127	0.2640017	0.1615855	0.0421814	0.0000000	0.1533381	0.1075921	342.5000	1.3537500	500.0000	9500.000	0.0000000	0.5099212	0.5376300	0.5818721	0.0387403	0.3320396	10250.000	3	NA	NA	NA	NA	NA	7	7	10	NA	7	14.763441	20.25879	NA	NA	NA	10	10	7	NA	NA	NA	7
CUVAWetlnd127	VIBIplotID	241K	CUVA	Summit	4	2x2	0.04	2018	2018-08-20	CUVAWetlnd2018Aug20	emergent	Marsh	mixed emergent marsh	PEM	NA	SP	NA	2.0000000	3.2500000	21.50000	15.25000	4.500000	4.500000	25.25000	24.75000	3.0000000	0.0988966	18.68453	2.900271	0.1046577	0.7683991	0.7674984	0.1905352	0.3672326	0.0336593	0.0008929	0.0853120	0.1064807	108.1250	2.3402500	125.0000	31825.000	0.0000000	0.7040803	0.7440410	0.8192249	0.0705914	0.6606180	33000.000	3	NA	7	NA	NA	NA	7	7	10	NA	7	21.711320	24.16892	NA	NA	NA	10	7	7	NA	NA	NA	10
CUVAWetlnd127	VIBIplotID	241K	CUVA	Summit	4	2x2	0.04	2023	2023-07-21	CUVAWetlnd2023Jul21	emergent	Marsh	mixed emergent marsh	PEM	NA	SP	NA	1.7500000	2.2500000	21.75000	14.50000	4.500000	4.500000	25.25000	25.25000	2.2500000	0.1074883	18.57529	3.622008	0.0000000	0.8120342	0.8120342	0.3438115	0.3326858	0.0109246	0.0062358	0.0970547	0.0757716	78.6250	3.1142500	175.0000	24275.000	0.0000000	0.7628657	0.8114002	0.9467379	0.1353377	0.7106056	27225.000	NA	NA	7	NA	NA	NA	7	7	10	NA	7	21.438227	30.18340	NA	NA	NA	10	7	10	NA	NA	NA	0
CUVAWetlnd128	VIBIplotID	241VK4	CUVA	Summit	3	1x3	0.03	2009	2009-08-06	CUVAWetlnd2009Aug06	emergent	Marsh	mixed emergent marsh	PEM	NA	RH	NA	1.0000000	2.0000000	25.66667	16.66667	4.333333	3.333333	22.33333	22.00000	0.6666667	0.1991384	15.19097	1.545935	0.0000000	0.7115493	0.6418893	0.0300696	0.7754918	0.1725131	0.0000000	0.1535059	0.0000000	135.0000	0.4873333	0.0000	5400.000	0.0008795	0.6149691	0.7893692	0.9323626	0.1075956	0.6154757	6066.667	0	NA	10	NA	7	NA	7	7	10	NA	7	12.977421	12.88279	NA	NA	NA	3	0	3	NA	NA	NA	10
CUVAWetlnd128	VIBIplotID	241VK4	CUVA	Summit	3	1x3	0.03	2018	2018-08-16	CUVAWetlnd2018Aug16	emergent	Marsh	mixed emergent marsh	PEM	NA	RH	NA	0.6666667	0.6666667	26.00000	16.33333	3.333333	3.000000	19.33333	19.33333	1.3333333	0.1114969	15.32317	2.759290	0.0000000	0.6142610	0.6340237	0.1865763	0.5499787	0.0055558	0.0049020	0.0391510	0.1444370	368.6667	1.3750000	300.0000	6533.333	0.0000000	0.4184648	0.6441425	0.7352147	0.1226581	0.4894483	9166.667	0	NA	10	NA	7	7	3	3	10	NA	7	13.307935	22.99408	NA	NA	NA	10	3	10	NA	NA	NA	7
CUVAWetlnd128	VIBIplotID	241VK4	CUVA	Summit	3	1x3	0.03	2023	2023-07-14	CUVAWetlnd2023Jul14	emergent	Marsh	mixed emergent marsh	PEM	NA	RH	NA	1.0000000	1.3333333	24.00000	15.33333	2.666667	2.000000	20.66667	18.66667	1.3333333	0.0867521	13.82791	2.853331	0.0000000	0.8016056	0.7753583	0.2295320	0.6017046	0.0083933	0.0000000	0.0103216	0.0888524	146.8333	2.6750000	633.3333	4200.000	0.0000000	0.5231845	0.6529332	0.7452925	0.0894973	0.6242714	7366.667	0	NA	7	NA	3	NA	3	NA	10	NA	3	9.569784	23.77776	NA	NA	NA	10	0	10	NA	NA	NA	10

Calculate module-level to get plot-level reference wetlands.

vibi_ref <- sumVIBI(survey_type = c("reference", "womc, reference"))

print_head(vibi_ref)

LocationID	FeatureTypes	FeatureID	Park	County	TotalMods	PlotConfig	AreaHA	SampleYear	SampleDate	EventID	DomVeg_Lev1	DomVeg_Lev2	DomVeg_Lev3	X1oPlants	X2oVegID	X1oHGM	HGMClass	Num_Carex	Num_Cyper	Num_Dicot	Num_Shade	Num_Shrub	Num_Shrub_reg	Num_Hydro	Num_Hydro_reg	Num_SVP	AP_Ratio	FQAI	cov_wt_C	Pct_Bryo	Pct_Hydro	Pct_Hydro_reg	Pct_Sens	Pct_Tol	Pct_InvGram	RelDen_SmTree	SubcanIV	CanopyIV	Avg_Bmass	Avg_Plot_Cover	trees_per_ha	shrubs_per_ha	pct_nat_hydro	pct_nat_peren	pct_peren	pct_advent	wet_index	tot_stems_per_ha	Carex_Score	Cyper_Score	Dicot_Score	Shade_Score	Shrub_Score_reg	Shrub_Score	Hydro_Score_reg	Hydro_Score	AP_Score	SVP_Score	FQAI_Score	FQAI_Score_FQ	Cov_Wt_C_Score_FQ	Pct_Bryo_Score	Pct_Hydro_Score_reg	Pct_Hydro_Score	Pct_Sens_Score	Pct_Tol_Score	Pct_InvGram_Score	SmTree_Score	SubcanIV_Score	CanopyIV_Score	Biomass_Score
CUVAWetlnd127	VIBIplotID	241K	CUVA	Summit	4	2x2	0.04	2009	2009-08-12	CUVAWetlnd2009Aug12	emergent	Marsh	mixed emergent marsh	PEM	NA	SP	NA	2.500000	4.25	17.25	12.000000	4.250000	4.250000	22.50	22.25	2.7500000	0.1502691	15.90538	2.431055	0.3919628	0.5235036	0.5233127	0.2640017	0.1615855	0.0421814	0.0000000	0.1533381	0.1075921	342.500	1.353750	500.000	9500.0000	0.5099212	0.5376300	0.5818721	0.0387403	0.3320396	10250.000	3	NA	NA	NA	NA	NA	7	7	10	NA	7	14.76344	20.25879	NA	NA	NA	10	10	7	NA	NA	NA	7
CUVAWetlnd127	VIBIplotID	241K	CUVA	Summit	4	2x2	0.04	2018	2018-08-20	CUVAWetlnd2018Aug20	emergent	Marsh	mixed emergent marsh	PEM	NA	SP	NA	2.000000	3.25	21.50	15.250000	4.500000	4.500000	25.25	24.75	3.0000000	0.0988966	18.68453	2.900271	0.1046577	0.7683991	0.7674984	0.1905352	0.3672326	0.0336593	0.0008929	0.0853120	0.1064807	108.125	2.340250	125.000	31825.0000	0.7040803	0.7440410	0.8192249	0.0705914	0.6606180	33000.000	3	NA	7	NA	NA	NA	7	7	10	NA	7	21.71132	24.16892	NA	NA	NA	10	7	7	NA	NA	NA	10
CUVAWetlnd127	VIBIplotID	241K	CUVA	Summit	4	2x2	0.04	2023	2023-07-21	CUVAWetlnd2023Jul21	emergent	Marsh	mixed emergent marsh	PEM	NA	SP	NA	1.750000	2.25	21.75	14.500000	4.500000	4.500000	25.25	25.25	2.2500000	0.1074883	18.57529	3.622008	0.0000000	0.8120342	0.8120342	0.3438115	0.3326858	0.0109246	0.0062358	0.0970547	0.0757716	78.625	3.114250	175.000	24275.0000	0.7628657	0.8114002	0.9467379	0.1353377	0.7106056	27225.000	NA	NA	7	NA	NA	NA	7	7	10	NA	7	21.43823	30.18340	NA	NA	NA	10	7	10	NA	NA	NA	0
CUVAWetlnd136	VIBIplotID	526	CUVA	Summit	10	2x5	0.1	2011	2011-07-19	CUVAWetlnd2011Jul19	emergent	Wet Meadow	fen	PEM	NA	RH	NA	2.500000	5.00	18.50	3.250000	3.000000	2.750000	23.50	23.25	1.0000000	0.0591754	21.87428	3.501946	0.0000000	0.6518955	0.6516568	0.4062626	0.4147677	0.0001124	0.3092274	0.0000000	0.0092850	296.250	2.027500	25.000	100.0000	0.6490115	0.9466615	0.9957875	0.0444093	0.4013869	1550.000	3	NA	7	NA	NA	7	7	7	10	NA	10	29.68569	29.18288	NA	NA	NA	10	3	10	NA	NA	NA	7
CUVAWetlnd136	VIBIplotID	526	CUVA	Summit	10	2x5	0.1	2018	2018-07-12	CUVAWetlnd2018Jul12	emergent	Wet Meadow	fen	PEM	NA	RH	NA	1.500000	4.25	13.75	3.000000	2.250000	1.250000	18.25	17.75	1.0000000	0.1011072	18.03954	2.467140	0.0000000	0.4955618	0.4854306	0.1993055	0.4773137	0.0045535	0.3369318	0.0000000	0.0244235	83.250	1.193000	50.000	0.0000	0.4583612	0.8223092	0.9642342	0.0983348	0.4450275	900.000	NA	NA	3	NA	NA	NA	3	3	10	NA	7	20.09884	20.55950	NA	NA	NA	10	3	10	NA	NA	NA	0
CUVAWetlnd136	VIBIplotID	526	CUVA	Summit	10	2x5	0.1	2023	2023-08-02	CUVAWetlnd2023Aug02	emergent	Wet Meadow	fen	PEM	NA	RH	NA	2.285714	5.00	23.00	7.285714	2.857143	2.857143	23.00	23.00	0.7142857	0.0095238	20.97801	3.481276	0.0000000	0.4815047	0.4902165	0.2691803	0.3846049	0.0029527	0.0238095	0.0000000	0.1511150	242.000	1.921571	1542.857	185.7143	0.4883623	0.8560530	0.9917636	0.1357742	0.2768289	1185.714	3	NA	7	NA	NA	NA	7	7	10	NA	7	27.44503	29.01063	NA	NA	NA	10	7	10	NA	NA	NA	7

Calculate module-level to get plot-level VIBI scores for depressional wetlands.

 vibi <- sumVIBI(hgm_class = "Depression")