plotPositivesFromPermulations: Plots changes in number of statistically significant rate...

In nclark-lab/RERconverge: Analysis of Convergence Between Organismal Traits and DNA/Protein Sequences

Plots changes in number of statistically significant rate acceleration or deceleration versus the number of permulations

Description

Plots changes in number of statistically significant rate acceleration or deceleration versus the number of permulations

Usage

plotPositivesFromPermulations(
  res,
  perm.out,
  interval,
  pvalthres,
  output.res = FALSE
)

Arguments

res	correlation statistic output from correlateWithBinaryPhenotype or correlateWithContinuousPhenotype
perm.out	output from getPermsBinary or getPermsContinuous
interval	interval of number of permulations (e.g., interval = 10 means that number of positives with be calculated for number of permulations = 10, 20, 30, ...)
pvalthres	p-value threshold for identifying statistically significant rate acceleration or deceleration
output.res	Boolean defining whether to output a list object containing changes in the number of identified elements with changing number of permulations (default=FALSE)

Value

A list containing changes in the number of identified elements with changing number of permulations (default=NULL)

nclark-lab/RERconverge documentation built on March 2, 2024, 8:51 a.m.