Software

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.
• trajdemog
  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.