gsea2T: This function performs GSEA of two gene sets for a given...

In fossbert/binilib: Carlo's little helper

Description

Similar to gsea_regulon but without any information on Mode of Regulation

Usage

gsea2T(
  signature,
  set1,
  set2,
  sorting = c("decreasing", "increasing"),
  weight = 1
)

Arguments

signature	Named vector of gene-level statistics (preferably t-statistics)
set1	character vector, i.e. the first gene set
set2	character vector, i.e. the second gene set
sorting	character indicating how to sort the signature (default is decreasing). Passed to gsea1T.
w	weight for each gene-level statistic (default = 1)

Value

a list object containing for each gene set:

signature

input signature

ES_pos

enrichment score set1

ES_neg

enrichment score set2

ES_pos_idx

enrichment score set1 index

ES_neg_idx

enrichment score set2 index

RS_pos

running sum for set1

RS_neg

running sum for set2

gs_idx_pos

indices of the set1 genes in the signature

gs_idx_neg

indices of the set2 genes in the signature

ledge_pos

gene identifiers of the leading edge for set1

ledge_neg

gene identifiers of the leading edge for set2

ledge_idx_pos

indices of the leading edge gene set members - set1

ledge_idx_neg

indices of the leading edge gene set members - set2

fossbert/binilib documentation built on April 23, 2021, 10:31 p.m.