geneXtendeR: Optimized Functional Annotation Of ChIP-seq Data
Version 1.4.0

geneXtendeR optimizes the functional annotation of ChIP-seq peaks using fast iterative peak-coordinate/GTF alignment algorithms. Since different ChIP-seq peak callers produce different differentially enriched peaks with a large variance in peak length distribution and total peak count, annotating peak lists with their nearest genes can be a noisy process. As such, the goal of geneXtendeR is to robustly link differentially enriched peaks with their respective genes, thereby aiding experimental follow-up and validation in designing primers for a set of prospective gene candidates during qPCR.

Package details

AuthorBohdan Khomtchouk [aut, cre]
Bioconductor views Annotation ChIPSeq ChipOnChip Coverage DataImport DifferentialPeakCalling GO Genetics GenomeAnnotation HistoneModification NaturalLanguageProcessing PeakDetection Software Visualization
MaintainerBohdan Khomtchouk <[email protected]>
LicenseGPL (>= 3)
Version1.4.0
URL https://github.com/Bohdan-Khomtchouk/geneXtendeR
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("geneXtendeR")

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geneXtendeR documentation built on Nov. 17, 2017, 10:03 a.m.