good.groups: Find groups represented in the data

In PIGShift: Polygenic Inverse Gamma Shifts

Description

This function takes in the list of genes for which gene expression data are available as well as the list of gene groups produced by read.groups and a minimum size (min_size) and returns those genes that have at least min_size genes with data available

Usage

good.groups(genes, groups, min_size = 2)

Arguments

genes	a vector containing the names of each gene for which expression data is available
groups	a list of gene groups, in the same format as the output of read.groups
min_size	the minimum size of groups to be considered

Value

A vector of group names that had at least min_size genes represented in the data

Examples

data(yeast)
length(GO.groups)
GO.groups.pruned = good.groups(colnames(yeast.hybrid),GO.groups,10)
length(GO.groups.pruned)

PIGShift documentation built on May 2, 2019, 9:02 a.m.