gsea2-class: The gsea2 class

In fossbert/binilib: Carlo's little helper

Description

This class contains the results generated by the gsea2T and the gsea_regulon function, respectively.

Slots

signature:

named numeric vector containg the gene expression signature

ES_pos:

numeric value containing the enrichment score of gene set 1 (pos. targets)

ES_neg:

numeric value containing the enrichment score of gene set 2 (neg. targets)

ES_pos_idx:

integer value indicating the position of the ES_pos

ES_neg_idx:

integer value indicating the position of the ES_neg

RS_pos:

numeric vector containing the running sum of gene set 1

RS_neg:

numeric vector containing the running sum of gene set 2

gs_idx_pos:

integers indicating the position the genes from the gene set 1 within the signature

gs_idx_neg:

integers indicating the position the genes from the gene set 2 within the signature

ledge_pos:

character vector of gene names from gene set 1 occuring before the ES in the signature

ledge_neg:

character vector of gene names from gene set 2 occuring before the ES in the signature

ledge_index_pos:

integer vector of leading edge gene positions from gene set 1

ledge_index_neg:

integer vector of leading edge gene positions from gene set 2

null_es_pos:

numeric vector of enrichment scores from a permutation based nullmodel for gene set 1

null_es_neg:

numeric vector of enrichment scores from a permutation based nullmodel for gene set 2

NES_pos:

numeric value containing the normalized enrichment score of gene set 1, will only be filled by gsea_null

NES_neg:

numeric value containing the normalized enrichment score of gene set 2, will only be filled by gsea_null

pval_pos:

numeric value containing the p-value of gene set 1, will only be filled by gsea_null

pval_neg:

numeric value containing the p-value of gene set 2, will only be filled by gsea_null

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