Software for population genetics available

 

Besides R/rehh and simNGS (https://cambridge-ceu.github.io/csd3/systems/setup.html#fn:simngs) earlier, this kickstarts with these modules:

  1. selscan. Haplotype based scans for selection, https://cambridge-ceu.github.io/csd3/applications/selscan.html.
  2. angsd. Analysis of Next Generation Sequencing Data, https://cambridge-ceu.github.io/csd3/applications/angsd.html.
  3. Relate. Software to estimate genome-wide genealogies for thousands of samples, https://cambridge-ceu.github.io/csd3/applications/related.html
  4. CLUES2. A method for inferring and evaluating evidence for selection, https://cambridge-ceu.github.io/csd3/applications/clues2.html.
  5. fastsimcoal2. Fast sequential Markov coalescent simulation of genomic data under complex evolutionary models, https://cambridge-ceu.github.io/csd3/applications/fsc2.html.
  6. hapstat. haplotype-disease association, https://cambridge-ceu.github.io/csd3/applications/hapstat.html.