SFS_CODE 0.9 – Forward Population Genetic Simulation program

SFS_CODE 0.9

:: DESCRIPTION

SFS_CODE  (Simulating Finite Sites under COmplex Demographic Events) can perform forward population genetic simulations under a general Wright-Fisher model with arbitrary migration, demographic, selective, and mutational effects.

SFS_CODE Online version

::DEVELOPER

The Hernandez Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOsX

:: DOWNLOAD

 SFS_CODE

:: MORE INFORMATION

Citation

Bioinformatics. 2008 Dec 1;24(23):2786-7. doi: 10.1093/bioinformatics/btn522. Epub 2008 Oct 7.
A flexible forward simulator for populations subject to selection and demography.
Hernandez RD.

popRange – A Spatially & Temporally Explicit Forward Population Genetic Simulator

popRange 1.1.3

:: DESCRIPTION

popRange is a forward genetic simulator, which incorporates large-scale genetic data with stochastic spatially and temporally explicit demographic and selective models.

::DEVELOPER

Kimberly McManus

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/ Linux/ MacOsX
  • R
  • Python

:: DOWNLOAD

 popRange

:: MORE INFORMATION

Citation

Source Code Biol Med. 2015 Apr 11;10:6. doi: 10.1186/s13029-015-0036-4. eCollection 2015.
popRange: a highly flexible spatially and temporally explicit Wright-Fisher simulator.
McManus KF

FASeg 2.0 – Forward Backward Fragment Assembling Segmentation

 

FASeg 2.0

:: DESCRIPTION

FASeg is an R package that performs forward-backward fragment assembling segmentation for array-CGH and SNP array data

::DEVELOPER

Tianwei Yu

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows / MacOsX
  • R

:: DOWNLOAD

FASeg

:: MORE INFORMATION

Citation

A forward-backward fragment assembling algorithm for the identification of genomic amplification and deletion breakpoints using high-density single nucleotide polymorphism (SNP) array.
Yu T, Ye H, Sun W, Li KC, Chen Z, Jacobs S, Bailey DK, Wong DT, Zhou X.
BMC Bioinformatics. 2007 May 3;8:145.

SLiM 3.3.1 – Forward Population Genetic Simulation

SLiM 3.3.1

:: DESCRIPTION

SLiM (Selection on Linked Mutations) is an evolutionary simulation framework that combines a powerful engine for population genetic simulations with the capability of modeling arbitrarily complex evolutionary scenarios. Simulations are configured via the integrated Eidos scripting language that allows interactive control over practically every aspect of the simulated evolutionary scenarios.

::DEVELOPER

Messer Lab

:: SCREENSHOTS

:: REQUIREMENTS

  • MacOsX
:: DOWNLOAD

SLiM

:: MORE INFORMATION

Citation

SLiM 3: Forward Genetic Simulations Beyond the Wright-Fisher Model.
Haller BC, Messer PW.
Mol Biol Evol. 2019 Mar 1;36(3):632-637. doi: 10.1093/molbev/msy228.