msbwt specifications

Information


Unique identifier OMICS_05976
Name msbwt
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python
License MIT License
Computer skills Advanced
Version 0.3.0
Stability Stable
Requirements
pysam, argparse, numpy
Maintained Yes

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Maintainer


  • person_outline James Holt <>

Additional information


https://github.com/holtjma/msbwt/wiki

Publication for msbwt

msbwt in publications

 (2)
PMCID: 5499171
PMID: 28592495
DOI: 10.1534/genetics.116.198838

[…] the seven founder strains sequenced by the sanger institute (), and a c57bl/6j sample provided by the jackson laboratory. the msbwts were constructed using a hybrid combination of ropebwt () and the msbwt merge algorithm () as described at https://github.com/holtjma/msbwt/wiki. the msbwts are a lossless compressed form of the raw, sequenced reads that can be efficiently queried to find number […]

PMCID: 5144988
PMID: 27765810
DOI: 10.1534/g3.116.034751

[…] (bwt) for each whole genome dataset was individually constructed in-memory using the ropebwt2 program (). after construction, each bwt was encoded using the run-length encoding format of the msbwt program () for disk storage. the bwts for lewes/eij and zalende/eij are 9.6 and 10.1 gb in size, respectively. instructions for building bwts are publicly available […]


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msbwt institution(s)
Supported by the Jackson Lab Center for Genome Dynamics: Evolution, Organization and Function (NIH P50GM076468) and the University of North Carolina Center for CISGen: Systems Genetics of Psychiatric Disorders (NIH P50HG006582, P50MH090338).

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