MSMC
MSMC (Multiple Sequentially Markovian Coalescent) is a software tool for analyzing and estimating the history of separation among populations. The MSMC algorithm can identify complicated demographic scenarios implicating post-split admixture or archaic introgression.
Topic
Phylogenomics
Detail
Operation: Phylogenetic tree analysis
Software interface: Command-line user interface
Language: D
License: GNU General Public License v3
Cost: Free
Version name: 2.1.3
Credit: European Molecular Biology Organization (EMBO), Wellcome Trust.
Input: -
Output: -
Contact: Stephan Schiffels schiffels@shh.mpg.de
Collection: -
Maturity: Mature
Publications
- MSMC and MSMC2: The Multiple Sequentially Markovian Coalescent.
- Schiffels S, Wang K (2020). MSMC and MSMC2: The Multiple Sequentially Markovian Coalescent. Methods Mol Biol 2090: 147-166.
- https://doi.org/10.1007/978-1-0716-0199-0_7
- PMID: 31975167
- PMC: -
- Inferring human population size and separation history from multiple genome sequences.
- Schiffels S, Durbin R. Inferring human population size and separation history from multiple genome sequences. Nat Genet. 2014 Aug;46(8):919-25. doi: 10.1038/ng.3015. Epub 2014 Jun 22. PMID: 24952747; PMCID: PMC4116295.
- https://doi.org/10.1038/ng.3015
- PMID: 24952747
- PMC: PMC4116295
- Tracking human population structure through time from whole genome sequences.
- Wang K, Mathieson I, O'Connell J, Schiffels S (2020). Tracking human population structure through time from whole genome sequences. PLoS Genet 16(3): e1008552.
- https://doi.org/10.1371/journal.pgen.1008552
- PMID: 32150539
- PMC: PMC7082067
Download and documentation
Documentation: https://github.com/stschiff/msmc2/blob/master/README.md
Home page: https://github.com/stschiff/msmc
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