ChIPseeker: ChIPseeker for ChIP peak Annotation, Comparison, and Visualization
Version 1.12.0

This package implements functions to retrieve the nearest genes around the peak, annotate genomic region of the peak, statstical methods for estimate the significance of overlap among ChIP peak data sets, and incorporate GEO database for user to compare the own dataset with those deposited in database. The comparison can be used to infer cooperative regulation and thus can be used to generate hypotheses. Several visualization functions are implemented to summarize the coverage of the peak experiment, average profile and heatmap of peaks binding to TSS regions, genomic annotation, distance to TSS, and overlap of peaks or genes.

Package details

AuthorGuangchuang Yu [aut, cre], Yun Yan [ctb], Herve Pages [ctb], Michael Kluge [ctb], Thomas Schwarzl [ctb]
Bioconductor views Annotation ChIPSeq MultipleComparison Software Visualization
MaintainerGuangchuang Yu <guangchuangyu@gmail.com>
LicenseArtistic-2.0
Version1.12.0
URL https://guangchuangyu.github.io/ChIPseeker
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("ChIPseeker")

Try the ChIPseeker package in your browser

Any scripts or data that you put into this service are public.

ChIPseeker documentation built on May 31, 2017, 11:29 a.m.