GSCA: Gene Set Context Analysis


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Documentation for package ‘GSCA’ version 1.6.0

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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.