MeDUSA is a computational pipeline bringing together numerous software packages to perform a full analysis of MeDIP-seq data, including sequence alignment, quality control (QC), and determination and annotation of DMRs.
It utilizes many applications in order to perform this task. From alignment (BWA) and subsequent filtering (SAMtools), through generation of numerous quality control metrics (FastQC and MEDIPS), DMR identification and finally preliminary annotation of the DMRs (utilizing the capabilities of BEDTools).
Version 2.1 (15/08/2013 - doesn't contain annotation files) - fixes bugs associated with CpG density and single replicate cohorts
Version 1.0 (03/04/2012)
Publication: Wilson GA, Dhami P, Feber A, Cortazar D, Suzuki Y, Schulz R, Schar P, Beck S (2012) Resources for methylome analysis suitable for gene knockout studies of potential epigenome modifiers. GigaScience 1 (1). doi:10.1186/2047-217X-1-3