Bismark

Maps bisulfite converted sequence reads and determine cytosine methylation states

http://www.bioinformatics.babraham.ac.uk/projects/bismark/

File search patterns

bismark/align:
  fn: "*_[SP]E_report.txt"
bismark/bam2nuc:
  fn: "*.nucleotide_stats.txt"
bismark/dedup:
  fn: "*.deduplication_report.txt"
bismark/m_bias:
  fn: "*M-bias.txt"
bismark/meth_extract:
  fn: "*_splitting_report.txt"