MACS (Model-based Analysis of ChIP-Seq)

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MACS (Model-based Analysis of ChIP-Seq) is a command line tool designed by X. Shirley Liu and colleagues to analyze data generated by ChIP-Seq experiments in eukaryote, especially in mammal. Given the ChIP-Seq data with or without control samples, MACS can be used to identify transcription factor binding sites and histone modification enriched regions.

Reference

Zhang Y, Liu T, Meyer CA, et al. Model-based Analysis of ChIP-Seq (MACS). Genome Biology. 2008;9(9):R137. doi:10.1186/gb-2008-9-9-r137.

Feng J, Liu T, Zhang Y. Using MACS to Identify Peaks from ChIP-Seq Data. Current protocols in bioinformatics / editoral board, Andreas D Baxevanis . [et al]. 2011;CHAPTER:Unit2.14. doi:10.1002/0471250953.bi0214s34.