bootStrapPeaks: Bootstrap Peaks in the Ks Distribution

In shinyWGD: 'Shiny' Application for Whole Genome Duplication Analysis

Bootstrap Peaks in the Ks Distribution

Description

This function performs bootstrapping on a given Ks (synonymous substitution rates) distribution to estimate peaks within the distribution.

Usage

bootStrapPeaks(
  ksRaw,
  binWidth = 0.1,
  maxK = 5,
  m = 3,
  peak.index = 1,
  peak.maxK = 2,
  spar = 0.25,
  rep = 1000,
  from = 0,
  to = maxK
)

Arguments

ksRaw	A numeric vector representing the raw Ks distribution to be bootstrapped.
binWidth	A numeric value indicating the bin width for histogram calculation.
maxK	A numeric value indicating the maximum Ks value to consider in the distribution.
m	An integer specifying the parameter for peak detection.
peak.index	An integer indicating the index of the peak to be estimated.
peak.maxK	A numeric value indicating the maximum Ks value for peak estimation.
spar	A numeric value controlling the smoothness of spline fitting.
rep	An integer specifying the number of bootstrap repetitions.
from	A numeric value indicating the lower bound for peak estimation.
to	A numeric value indicating the upper bound for peak estimation.

Value

A numeric vector containing bootstrapped peak estimates.

shinyWGD documentation built on April 4, 2025, 2:28 a.m.