tallyFishSpp: Tally PAWMAP Fish Species Composition Data.

In PDXChris/pmtools: Tools for Working with PAWMAP Data

Tally PAWMAP Fish Species Composition Data.

Description

Tally PAWMAP Fish Species Composition Data.

Usage

tallyFishSpp(
  dfm,
  speciesIn = "common_name",
  sppLook = "Common_Name",
  by = "row",
  countFields = c("totNum", "numSurv"),
  station = "site_identifier",
  dateField = "collection_start_date",
  noFish = "fished_none_collected"
)

Arguments

dfm	The data frame containing fish counts
speciesIn	The field in dfm that identifies species
sppLook	Look up species traits by: "Common_Name" (default) or "Species_Name"
by	Are the data formatted one row per individual ('row'), or counts per species ('counts')?
countFields	Only used if by='count'. A vector of length 2 indicating the fields for total number of each species captured first, and the number of surveys on which they were captured second.
station	The field identifying the sampling station
dateField	The field identifying the sampling date
noFish	String of field name indicating the survey found no fish

Value

A table of fish species presence (number of surveys on which species was captured), and abundance (total number of individuals captured)

PDXChris/pmtools documentation built on March 26, 2024, 8:13 a.m.