Motivation: We present a pipeline for the pre-processing, quality assessment, read distribution and methylation estimation for MeDIP-sequence datasets. This is the first analytic pipeline targeted specifically to the needs of MeDIP-seq data analysis starting from the output of the sequencers. This pipeline will reduce the data analysis load on staff and allows the easy and straightforward analysis of sequencing data for DNA methylation. The pipeline integrates customized scripting, and several existing utilities tools, which can work on both paired end and single end data.
Availability: The package and documentation is available at http://life.tongji.edu.cn/meqa/
Contact: jhuang AT cephb DOT fr