The massive amount of information produced by ChIP-Seq, RNA-Seq, and other next-generation sequencing-based methods requires computational data analysis. However, biologists performing these experiments often lack training in bioinformatics. BioWardrobe aims to bridge this gap by providing a convenient user interface and by automating routine data-processing steps. This protocol details the use of BioWardrobe for identifying and visualizing ChIP-Seq peaks, calculating RPKMs, performing differential binding or gene expression analysis, and creating plots and heat maps. We specifically describe how to use BioWardrobe’s quality control measures for troubleshooting NGS-based experiments.
CITATION STYLE
Vallabh, S., Kartashov, A. V., & Barski, A. (2018). Analysis of ChIP-seq and RNA-seq data with biowardrobe. In Methods in Molecular Biology (Vol. 1783, pp. 343–360). Humana Press Inc. https://doi.org/10.1007/978-1-4939-7834-2_17
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