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bismark 0.20.1 Map bisulfite treated sequence reads and analyze methylation

Bismark is a program to map bisulfite treated sequencing reads to a genome of interest and perform methylation calls in a single step. The output can be easily imported into a genome viewer, such as SeqMonk, and enables a researcher to analyse the methylation levels of their samples straight away. Its main features are:

  • Bisulfite mapping and methylation calling in one single step

  • Supports single-end and paired-end read alignments

  • Supports ungapped and gapped alignments

  • Alignment seed length, number of mismatches etc are adjustable

  • Output discriminates between cytosine methylation in CpG, CHG and CHH context