ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization

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ID: 289803
2015
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Abstract
Abstract Summary: ChIPseeker is an R package for annotating ChIP-seq data analysis. It supports annotating ChIP peaks and provides functions to visualize ChIP peaks coverage over chromosomes and profiles of peaks binding to TSS regions. Comparison of ChIP peak profiles and annotation are also supported. Moreover, it supports evaluating significant overlap among ChIP-seq datasets. Currently, ChIPseeker contains 15 000 bed file information from GEO database. These datasets can be downloaded and compare with user’s own data to explore significant overlap datasets for inferring co-regulation or transcription factor complex for further investigation. Availability and implementation: ChIPseeker is released under Artistic-2.0 License. The source code and documents are freely available through Bioconductor (http://www.bioconductor.org/packages/release/bioc/html/ChIPseeker.html). Contact: guangchuangyu@gmail.com or tqyhe@jnu.edu.cn Supplementary information: Supplementary data are available at Bioinformatics online.
Reference Key
openalex_W2170830174 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Guangchuang Yu, Li-Gen Wang, Qing‐Yu He
Journal BMC Bioinformatics
Year 2015
DOI
10.1093/bioinformatics/btv145
URL
https://doi.org/10.1093/bioinformatics/btv145
Keywords Keywords not found

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