distBoot: Bootstrap distance distribution

In aarkatkar/gelClust: Clustering and pathway analysis using exponential distributions

Bootstrap distance distribution

Description

Create a distribution of minimal distances between features by shuffling each row of the original data independently. Used for computed p-values of minimal paths with pBoot.

Usage

distBoot(x, partial = FALSE, squared = TRUE, output = "orig")

Arguments

x	Original dataset of features to be shuffled
partial	Whether to compute partial correlations
squared	Whether to square correlations
output	Output of the internal gelMatrix call. Either "orig" or "unif" for forcing a uniform distribution of p-values.

Value

A n_features x n_features matrix of the minimal distance between each pair of features in the bootstrap distribution.

Author(s)

Anooj Arkatkar

See Also

minPath, pBoot

Examples

# Load data
data(foldChange)

# Plot the bootstrap distribution of minimal paths
bdist <- distBoot(foldChange)
hist(bdist)

aarkatkar/gelClust documentation built on May 6, 2022, 12:24 a.m.