Repositories list

• SLiM

  Public
  SLiM is a genetically explicit forward simulation software package for population genetics and evolutionary biology. It is highly flexible, with a built-in scripting language, and has a cross-platform graphical modeling environment called SLiMgui.

  slim

  C++

  •

  GNU General Public License v3.0

  •36•203•29•3•Updated Dec 15, 2025Dec 15, 2025

• Containment

  Public
  Code and data for "Predicting the invasiveness of threshold-dependent gene drives" paper

  R

  •0•0•0•0•Updated Nov 9, 2025Nov 9, 2025

• multilocus-suppression

  Public
  R

  •0•0•0•0•Updated Nov 8, 2025Nov 8, 2025

• SLiM-Extras

  Public
  Extra add-ons that may be useful for people using SLiM, but that are not part of the SLiM project itself

  slim

  Jupyter Notebook

  •17•43•0•1•Updated Oct 30, 2025Oct 30, 2025

• MultispeciesGeneDriveNZ

  Public
  Code for the forthcoming "Evaluating Gene Drive for Invasive Mammal Control in a Complex Ecological Model of the South Island of New Zealand".

  Slim

  •0•0•0•0•Updated Oct 26, 2025Oct 26, 2025

• SLiM5Paper

  Public
  Scripts and data for our paper about SLiM 5.0.

  Slim

  •

  MIT License

  •0•0•0•0•Updated Aug 7, 2025Aug 7, 2025

• SLiM-Tests

  Public
  Additional tests for SLiM validation and performance evaluation

  slim

  Slim

  •1•0•0•0•Updated Apr 20, 2025Apr 20, 2025

• ResourceExplicitModels

  Public
  Models and data for "Resource-Explicit Interaction Models for Spatial Populations"

  Slim

  •0•6•0•0•Updated Apr 14, 2025Apr 14, 2025

• cluster-guide

  Public
  Slim

  •0•1•0•0•Updated Dec 5, 2023Dec 5, 2023

• SLiM-Benchmarks

  Public
  Benchmarking scripts to compare single-threaded and multi-threaded SLiM performance

  slim

  Slim

  •1•1•0•0•Updated Aug 14, 2023Aug 14, 2023

• Chasing

  Public
  Data and models for "Suppression gene drive in continuous space can result in unstable persistence of both drive and wild-type alleles"

  Slim

  •0•1•0•0•Updated Jan 23, 2023Jan 23, 2023

• CRISPR-Cas9-fitness-effects

  Public
  Files and data to accompany "Fitness effects of CRISPR endonucleases in D. melanogaster populations"

  R

  •

  Other

  •0•0•0•0•Updated Sep 30, 2022Sep 30, 2022

• PerformanceOfAnophelesDriveCandidates

  Public
  Models and data to accompany "Finding the strongest gene drive: Simulations reveal unexpected performance differences between Anopheles homing suppression drive candidates".

  Slim

  •0•1•0•0•Updated Apr 8, 2022Apr 8, 2022

• TetheredDrives

  Public
  Data and code for "Experimental demonstration of tethered gene drive systems for confined population modification or suppression."

  Mathematica

  •0•0•0•0•Updated Apr 7, 2022Apr 7, 2022

• HomingSuppressionDrive

  Public
  Data and code for "A homing suppression gene drive with multiplexed gRNAs maintains high drive conversion efficiency and avoids functional resistance alleles."

  R

  •1•0•0•0•Updated Dec 25, 2021Dec 25, 2021

• GeneDriveForSuppressionOfInvasiveRodents

  Public
  Files and data to accompany "Modeling CRISPR gene drives for suppression of invasive rodents".

  Python

  •1•3•0•0•Updated Oct 7, 2021Oct 7, 2021

• evolve-resequence-simulation

  Public
  A customizable tool for simulation of evolve and resequence experiments on a quantitative trait

  R

  •3•2•0•0•Updated Jun 16, 2021Jun 16, 2021

• GeneDriveForRodentControl

  Public
  Files and data to accompany "Modeling the potential of CRISPR gene drives for rodent management".

  0•0•0•0•Updated Oct 16, 2020Oct 16, 2020

• HaplolethalHomingDrive

  Public
  Files associated with "A CRISPR homing gene drive targeting a haplolethal gene removes resistance alleles and successfully spreads through a cage population".

  1•0•0•0•Updated Aug 7, 2020Aug 7, 2020

• asymptoticMK

  Public
  A web-based tool for estimating alpha, the fraction of nucleotide substitutions in a given genomic region that were driven to fixation by positive selection.

  R

  •

  GNU General Public License v3.0

  •1•6•1•0•Updated Jan 20, 2020Jan 20, 2020

• Binomial-Analysis

  Public
  A tool for performing binomial analysis to detect batch effects

  R

  •1•0•0•0•Updated Dec 29, 2019Dec 29, 2019

• TA-Underdominance-Drives

  Public
  Models and data for "Design and analysis of CRISPR-based underdominance toxin-antidote gene drives."

  HTML

  •0•0•0•0•Updated Dec 4, 2019Dec 4, 2019

• ToxinAntidoteSystems

  Public
  Data and code for "Performance analysis of novel toxin-antidote CRISPR gene drive systems"

  HTML

  •0•0•0•0•Updated Nov 11, 2019Nov 11, 2019

• Homing_Mechanisms_with_multiplexed_gRNAs

  Public
  Data and models for "Computational and experimental performance of CRISPR homing gene drive strategies with multiplexed gRNAs"

  HTML

  •0•0•0•0•Updated Oct 30, 2019Oct 30, 2019

• UnderdominanceGeneDriveSystems

  Public
  Models and data for "Population dynamics of underdominance gene drive systems in continuous space."

  HTML

  •0•0•0•0•Updated Oct 2, 2019Oct 2, 2019

• ResistanceInGeneDrives

  Public
  HTML

  •0•0•0•0•Updated Feb 21, 2018Feb 21, 2018