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    • msUtils

      Public
      A collection of C utilities for working with ms-formatted output files. Code is fast, flexible, and has many stats implemented
      C
      MIT License
      1100Updated Dec 13, 2024Dec 13, 2024
    • estimating dispersal distance from georeferenced polymorphisms
      Python
      MIT License
      2371Updated Nov 25, 2024Nov 25, 2024
    • We are building a biologically and ecologically realistic SLiMulation of barnacles.
      Slim
      0200Updated Nov 15, 2024Nov 15, 2024
    • discoal

      Public
      discoal is a coalescent simulation program capable of simulating models with recombination, selective sweeps, and demographic changes including population splits, admixture events, and ancient samples
      TeX
      GNU General Public License v3.0
      104830Updated Oct 10, 2024Oct 10, 2024
    • standardizing spatial simulation slim scripts with a template
      Jupyter Notebook
      1303Updated Oct 4, 2024Oct 4, 2024
    • ReLERNN

      Public
      Recombination Landscape Estimation using Recurrent Neural Networks
      Python
      MIT License
      1250100Updated Sep 27, 2024Sep 27, 2024
    • locator

      Public
      deep learning prediction of geographic location from individual genome sequences
      Python
      Other
      184682Updated Sep 4, 2024Sep 4, 2024
    • diploSHIC

      Public
      feature-based deep learning for the identification of selective sweeps
      Python
      MIT License
      145062Updated Sep 3, 2024Sep 3, 2024
    • mapNN

      Public
      neural network for estimating demographic maps from SNPs
      Python
      MIT License
      1930Updated Jun 30, 2024Jun 30, 2024
    • popvae

      Public
      genotype dimensionality reduction with a VAE
      Python
      Other
      94131Updated Apr 23, 2024Apr 23, 2024
    • Jupyter Notebook
      0120Updated Oct 5, 2023Oct 5, 2023
    • Estimating dispersal using deep neural networks
      Python
      3700Updated Sep 29, 2023Sep 29, 2023
    • Jupyter Notebook
      2240Updated Aug 9, 2023Aug 9, 2023
    • HTML
      0000Updated Apr 27, 2023Apr 27, 2023
    • FILET

      Public
      Software for detecting introgression using supervised machine learning
      C
      GNU General Public License v3.0
      51810Updated Nov 21, 2022Nov 21, 2022
    • Bio 610 module on population genetics
      Jupyter Notebook
      0020Updated Mar 11, 2022Mar 11, 2022
    • 2300Updated Feb 24, 2021Feb 24, 2021
    • shIC

      Public
      The Soft/Hard Inference through Classification tool for detecting hard and soft selective sweeps
      C
      01410Updated Feb 2, 2021Feb 2, 2021
    • spaceness

      Public
      Space is the Place: Effects of Continuous Spatial Structure on Analysis of Population Genetic Data
      HTML
      3700Updated Apr 10, 2020Apr 10, 2020
    • snakemake workflow example for msprime
      Python
      0000Updated Nov 1, 2019Nov 1, 2019
    • im_clam

      Public
      package for exact calculation of the joint site frequency spectrum under Isolation with Migration models as described in Kern and Hey (2017) http://www.genetics.org/content/207/1/241
      C
      MIT License
      0210Updated Nov 24, 2017Nov 24, 2017
    • Liu and Fu's StairwayPlot program modified to estimate a mispolarization parameter
      Java
      GNU Lesser General Public License v3.0
      0400Updated Nov 29, 2016Nov 29, 2016
    • popCons

      Public
      constrained elements predicted from population genomic data
      1000Updated Oct 7, 2015Oct 7, 2015
    • Contains supplementary data from the Schrider et al. (2015) "Soft Shoulders" paper.
      0000Updated Feb 6, 2015Feb 6, 2015