plot_cdf_fishtissue: Plot Fish Study CDF

In leppott/ProjectTasks: Project Plots and Tables

Plot Fish Study CDF

Description

CDF for fish study projects

Usage

plot_cdf_fishtissue(
  fun.DF,
  fun.Main,
  fun.xlim.x,
  fun.xlim.y,
  fun.xlab,
  fun.ylab,
  fun.axis.4.at,
  fun.axis.4.labels,
  fun.axis.4.mtext,
  fun.SV.plot,
  fun.SV,
  fun.SV.int,
  fun.SV.lab,
  fun.SV2.plot,
  fun.SV2,
  fun.SV2.int,
  fun.SV2.lab,
  fun.SV3.plot,
  fun.SV3,
  fun.SV3.int,
  fun.SV3.lab,
  fun.SV4.plot,
  fun.SV4,
  fun.SV4.int,
  fun.SV4.lab,
  fun.SV5.plot,
  fun.SV5,
  fun.SV5.int,
  fun.SV5.lab,
  fun.break.boo = FALSE,
  fun.break.max.at = NA,
  fun.break.max.text = NA,
  fun.break.pos = NA,
  fun.break.axis.at = NA,
  fun.break.axis.labels = NA,
  leg_SV_str = "Screening Value",
  leg_SV_units = NA,
  leg_SV_verbose = TRUE,
  fun.axis.2.mtext = NA,
  fun.xlog = FALSE
)

Arguments

fun.DF	Data data frame
fun.Main	plot(main)
fun.xlim.x	plot(xlim), value 1
fun.xlim.y	plot(xlim), value 2
fun.xlab	plot(xlab)
fun.ylab	plot(ylab)
fun.axis.4.at	axis 4 (right), at
fun.axis.4.labels	axis 4 (right), labels
fun.axis.4.mtext	axis 4 (right), margin text label
fun.SV.plot	Screening Value 1, boolean value to plot SV
fun.SV	Screening Value 1, numeric value
fun.SV.int	Screening Value 1, y-intercept value
fun.SV.lab	Screening Value 1, legend (source)
fun.SV2.plot	Screening Value 2, boolean value to plot SV
fun.SV2	Screening Value 2, numeric value
fun.SV2.int	Screening Value 2, y-intercept value
fun.SV2.lab	Screening Value 2, legend (source)
fun.SV3.plot	Screening Value 3, boolean value to plot SV
fun.SV3	Screening Value 3, numeric value
fun.SV3.int	Screening Value 3, y-intercept value
fun.SV3.lab	Screening Value 3, legend (source)
fun.SV4.plot	Screening Value 4, boolean value to plot SV
fun.SV4	Screening Value 4, numeric value
fun.SV4.int	Screening Value 4, y-intercept value
fun.SV4.lab	Screening Value 4, legend (source)
fun.SV5.plot	Screening Value 4, boolean value to plot SV
fun.SV5	Screening Value 4, numeric value
fun.SV5.int	Screening Value 4, y-intercept value
fun.SV5.lab	Screening Value 4, legend (source)
fun.break.boo	Should x-axis include a break. Default = FALSE
fun.break.max.at	. Default = NA
fun.break.pos	location of break. Default = NA
fun.break.axis.at	break. Default = NA
fun.break.axis.labels	new x-axis labels with break
leg_SV_str	Legend screening value, SV text. Default = "Screening Value"
leg_SV_units	Legend screening value, units. Default = NA
leg_SV_verbose	Boolean to include SV in the legend with or without lab, units, and SV value. Default = TRUE (FALSE will be leg_SV_str only)
fun.axis.2.mtext	axis 2 (left) margin text label. Default = NA
fun.xlog	Boolean value if x-axis should be log10 transformed. Default = FALSE

Details

Plots CDF with different options for fish tissue studies (NLA, NRSA, and Great Lakes).

Plots are base R.

Saves plots to a user defined folder.

uses the Hmisc and plotrix packages

BREAKING CHANGE 2023-10-04 Added 5th Screening Value If didn't specify parameters and assumed an order will break code

# CDF plotting function for Fish Tissue project # 20161005, [e-mail] # move function to its own script # 20200401, edits ## Screening Value to "Human Health Benchmark", leg_SV_str ## add ng/g to parenthetical, leg_SV_units, adds if present # 20210826, Add legend label update # 20220322, Legend, "Data" to "Fillet Concentration Data" # 20220414, move to package scripts, was fun.plot.CDF.fish # 20231006 ## increase SV thickness 1.5 to 2 and color green to darkgreen ## trigger for SV annotations in legend

# Derived from NRSA version (more advanced with Log scale than GL version)

Value

CDF plot customized for Fish Tissue project.

Examples

# non at this time

leppott/ProjectTasks documentation built on Oct. 12, 2023, 1:18 a.m.