ChIPXpress: enhanced transcription factor target gene identification from ChIP-seq and ChIP-chip data using publicly available gene expression profiles

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Documentation for package ‘ChIPXpress’ version 1.44.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

ChIPXpress-package	ChIPXpress ranks TF target genes given predicted TF targets from ChIP-chip and ChIP-seq data using publicly available gene expression data
buildDatabase	Builds a new database of gene expression profiles from a specified platform or sample files in NCBI GEO.
ChIPXpress	ChIPXpress Ranking
cleanDatabase	Cleans the annotated output from buildDatabase to the required format for ChIPXpress analyses
Oct4ESC_ChIPgenes	Predicted Oct4 bound genes in embryonic stem cells (ESC) obtained from analyzing ChIP-seq data