BSMAP pipeline

BSMAP specifications


Unique identifier OMICS_00579
Alternative name Bisulfite Sequence Mapping Program
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input format FASTQ, BAM
Output format SAM/BAM, BSP, text
Operating system Unix/Linux
Programming languages C++
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes


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  • person_outline Wei Li <>

Publication for Bisulfite Sequence Mapping Program

BSMAP citation

PMCID: 5580327

[…] analyses including all predicted states for all nine cell types are presented in additional file 1: figure s3., for each wgbs sample in 31 normal cell types (additional file 3: table s5), we use bsmap to trim adaptor and low-quality sequences with default threshold, align bisulfite-treated reads to human hg19 genome. bseqc [39] was then used to remove the technical biases in wgbs data, […]

BSMAP institution(s)
Division of Biostatistics, Dan L Duncan Cancer Center, Department of Molecular and Cellular Biology, Baylor College of Medicine, One Baylor Plaza, Houston, TX, USA

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