A ChIP-Seq Data Analysis Pipeline Based on Bioconductor Packages.
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ABSTRACT:
SUBMITTER: Park SJ
PROVIDER: S-EPMC5389943 | biostudies-literature | 2017 Mar
REPOSITORIES: biostudies-literature
Publications
A ChIP-Seq Data Analysis Pipeline Based on Bioconductor Packages.
Park Seung-Jin SJ Kim Jong-Hwan JH Yoon Byung-Ha BH Kim Seon-Young SY
Genomics & informatics 20170329 1
Nowadays, huge volumes of chromatin immunoprecipitation-sequencing (ChIP-Seq) data are generated to increase the knowledge on DNA-protein interactions in the cell, and accordingly, many tools have been developed for ChIP-Seq analysis. Here, we provide an example of a streamlined workflow for ChIP-Seq data analysis composed of only four packages in Bioconductor: dada2, QuasR, mosaics, and ChIPseeker. 'dada2' performs trimming of the high-throughput sequencing data. 'QuasR' and 'mosaics' perform q ...[more]
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