The MethylSeq workflow uses Bismark for methylation calling. Bismark is a tool that maps bisulfite-converted sequence reads and determines cytosine methylation states. The Bismark tool is a product of the Babraham Bioinformatics Group at the Babraham Institute.

For more information and to review the Bismark User Guide, see

1 Krueger F. and Andrews S.R. (2011) Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications. Bioinformatics, 27, 1571–1572.


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