# GSCA: Gene Set Context Analysis

## Documentation for package ‘GSCA’ version 2.42.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

GSCA-package | GSCA: Gene Set Context Analysis
annotatePeaks | Annotate ChIPx peaks with genes by Entrez GeneIDs
ConstructTG | Construct target genes for a TF using TF-bound genes and differentially expressed genes from ChIP-chip or ChIP-seq and TF perturbation gene expression data.
geneIDdata | Homologene data
GSCA | GSCA
GSCAeda | GSCA follow-up exploratory data analysis
GSCAplot | Visualize GSCA output
GSCAui | Launch GSCA interactive User Interface
Oct4ESC_TG | Oct4 activated (+) and repressed (-) target genes in embryonic stem cells
STAT1_TG | STAT1 activated (+) target genes defined from experimental ChIP-seq data and literature survey.
tabSearch | Searches through GPL96, GPL1261, GPL570 or GPL571 compendium data for biological contexts of interest.