fishtrendplots: Fish Trend Plots

In mnsentinellakes/mnsentinellakes: Minnesota DNR Sentinel Lakes Program Tools

Fish Trend Plots

Description

This function creates and saves fish trend scatter plots comparing CPUE across surveys. It will also save a .csv table with trend statistics calculated with the fishstats() function.

Usage

fishtrendplots(
  plotdata,
  logtransform = TRUE,
  saveto = paste0(getwd()),
  ptcolor = "blue",
  ptsize = 3,
  pttype = 20,
  addlm = TRUE,
  lmcolor = "black",
  lmsize = 1,
  lmtype = 2,
  includestats = TRUE,
  statstable = TRUE,
  maxpvalue = 0.1
)

Arguments

plotdata	a water quality data.frame created with the fishtable() function.
logtransform	a logical indicating whether the statistics should be calulated using the natural log of the CPUE +1 values. Defaults to TRUE.
saveto	designates the folder where the plots and table should be saved. Defaults to the working directory.
ptcolor	designates the color of the points in the plots. Defaults to "blue".
ptsize	designates the size of the points in the plots. Defaults to 3.
pttype	designates the type of the points in the plots. Defaults to 20.
addlm	a logical indicating whether the linear regression line should be displayed on the plot. Defaults to TRUE.
lmcolor	designates the color of the linear regression line. Defaults to "black".
lmsize	designates the size of the linear regression line. Defaults to 1.
lmtype	designates the type of the linear regression line. Defaults to 2.
includestats	a logical indicating whether the R-squared and p-value statistics text should be displayed on the plot. Defaults to TRUE.
statstable	a logical indicating whether a .csv of trend statistics should be saved. Defaults to TRUE.
maxpvalue	a numeric indicating the maximum p-value limit for a species' CPUE trend to be included in the export. Any species' CPUE trends with a p-value above this number will not be exported. Defaults to 0.1.

Value

.png plots and statistics .csv

See Also

Other Fish: fishabbrev2common(), fishabbrev2scientific(), fishcommon2abbrev(), fishcommon2scientific(), fishscientific2abbrev(), fishscientific2common(), fishspeciesmetadata, fishsurveydata(), fishtable(), fishtrendstats(), lakefinderdownload()

Examples

## Not run: 
#Download the data
x <- lakefinderdownload("21005700")

#Select fisheries survey data
y <- fishsurveydata(
       lakefinderdata = x
     )

#Extract appropriate data for each fish species
z <-fishtable(
      fishsurvey = y,
      fishspecies = c("Bluegill","Largemouth Bass"))

fishtrendplots(plotdata = z)

## End(Not run)

mnsentinellakes/mnsentinellakes documentation built on May 4, 2024, 7:48 p.m.