Bison: bisulfite alignment on nodes of a cluster

BMC Bioinformatics

Table 1 Feature comparison of the various compared aligners

	Bismark	Bison/bison_herd	BSMAP	BSmooth	BS-Seeker2	GNUMAP-bs
Intermediate files	Yes	Yes/No	No	Yes	Yes	Yes
Compressed input	Yes	Yes	Yes	Yes	Yes	No
MPI	No	Yes	No	No	No	Yes
MAPQ scores	No	Yes	No	Yes	No	Yes
Creates M-bias plots	Yes	Yes	No	Yes	No	No
Per-read M-bias	Yes	Yes	No	No	No	No
Per-strand M-bias	No	Yes	No	No	No	No
Filter by MAPQ	No	Yes	No	Yes	No	No
Filter by Phred	No	Yes	No	Yes	No	No
Filter by M-bias	Yes	Yes	No	Yes	No	No
Mark duplicates	Yes	Yes	No	No	No	No
Methylation file format	bedGraph	bedGraph	custom TSV	custom TSV	Wig, custom TSV	custom TSV

ISSN: 1471-2105