benthic.sqo: Get Benthic Related Indices, and the Integrated Benthic SQO...

In SCCWRP/SQOUnified: Tools for calculating SQO scores based on three Lines of Evidence (Benthic, Tox, Chem)

Get Benthic Related Indices, and the Integrated Benthic SQO Score

Description

This function will calculate, RBI, IBI, BRI, RIVPACS, MAMBI, as well as the Integrated Benthic SQO score / category. The ultimate guide for these indices (EXCEPT MAMBI) is the CASQO Technical Manual pages 64 to 94

Usage

benthic.sqo(benthic_data)

Arguments

benthic_data

a data frame. This data frame must contain the following information with these headings: StationID - an alpha-numeric identifier of the location; Replicate - a numeric identifying the replicate number of samples taken at the location; SampleDate - the date of sample collection; Latitude - latitude in decimal degrees; Longitude - longitude in decimal degrees. Make sure there is a negative sign for the Western coordinates; Taxon - name of the fauna, ideally in SCAMIT ed12 format, do not use sp. or spp., use sp only or just the Genus. If no animals were present in the sample use NoOrganismsPresent with 0 abundance; Abundance - the number of each Species observed in a sample; Salinity - the salinity observed at the location in PSU, ideally at time of sampling; Stratum - The stratum under which the station falls (Bays, Estuaries, etc); Exclude - Yes or No;

Examples

data(benthic_sampledata) # load the sample data
benthic.sqo(benthic_sampledata) # get scores and see output

SCCWRP/SQOUnified documentation built on Nov. 3, 2024, 12:54 a.m.