MSTMap pipeline

MSTMap specifications


Unique identifier OMICS_07416
Name MSTMap
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes


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Unique identifier OMICS_07416
Name MSTMap
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for MSTMap

MSTMap IN pipelines

PMCID: 5716196
PMID: 29036322
DOI: 10.1093/nar/gkx853

[…] for having >90% similarity with another ril. markers with segregation distortion were identified and any markers with a p-value < 1e-10 were removed. genetic maps were constructed using the mstmap.cross function. the p-value cutoff for genetic map construction (with and without imputation) was adjusted so that 10 or more distinct linkage groups were identified, and the detection of bad […]

PMCID: 4083584
PMID: 25071835
DOI: 10.3389/fgene.2014.00208

[…] harboring them (figure 1)., the popseq method (mascher et al., 2013) utilizes established software for read mapping (bwa (li and durbin, 2009), variant calling [samtools (li, 2011)] and map-making [mstmap (wu et al., 2008)]. snps detected by whole-genome sequencing of a mapping population are placed into a genetic framework of this same population through a simple nearest neighbor search. […]

MSTMap institution(s)
Department of Computer Science and Engineering, University of California Riverside, Riverside, CA, USA

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