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Software for detecting selective sweeps
- OmegaPlus / github
detects selective sweeps based on the Linkage Disequilibrium signatures.
- SweeD gihub
detects selective sweeps using the Site Frequency Spectrum signature
- RAiSD github
It combines all 3 known signatures of selective sweeps using the notion of SNP vectors.
Software for simulations
- CoMuS / github link
It simulates polymorphic data in a multi-species coalescent framework.
Part of the code was made available from RR Hudson. In fact, I just added some code for simulating data in various demographic models.
- SPS / github link
A forward-backward simulator for simulating genetic data in a spatial framework
- FEG / github link
An evolutionary game simulator for genetic data. Behavior is under selection pressure. There are “competitors”, “synergists” and individuals who just ignore other members.