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    20 repositories

    • grenepipe

      Public
      A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles - for sampled individuals, and for pool sequencing.
      snakemakevariant-callingpopulation-geneticsvariant-callssnakemake-workflowpool-sequencingancient-dnaevolve-and-resequencegenomic-variant-calling
      Python
      •
      GNU General Public License v3.0
      •22•97•2•0•Updated May 9, 2025May 9, 2025

    • moiexpositoalonsolab.github.io

      Public
      Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes
      HTML
      •
      MIT License
      •47k•0•0•0•Updated Apr 25, 2025Apr 25, 2025

    • grene

      Public
      the R package of the GrENE-net evolution experiment (grene-net.org)
      Jupyter Notebook
      •
      Other
      •2•1•0•0•Updated Apr 24, 2025Apr 24, 2025

    • DivShift

      Public
      Code for DivShift: Exploring Domain-Specific Distribution Shift in Large-Scale, Volunteer-Collected Biodiversity Datasets
      Python
      •
      MIT License
      •0•1•0•0•Updated Apr 16, 2025Apr 16, 2025

    • deepbiosphere

      Public
      Python
      •
      MIT License
      •2•23•6•1•Updated Mar 21, 2025Mar 21, 2025

    • grenedalf

      Public
      Toolkit for Population Genetic Statistics from Pool-Sequenced Samples, e.g., in Evolve and Resequence experiments
      C++
      •
      GNU General Public License v3.0
      •4•0•0•0•Updated Oct 23, 2024Oct 23, 2024

    • HapFIRE

      Public
      Python
      •
      Apache License 2.0
      •1•0•0•0•Updated Aug 21, 2024Aug 21, 2024

    • Athaliana_Natural_Selection_Conflict

      Public
      Analyses of Arabidopsis thaliana phenotype, climate, and genotype data associated with Ruffley et. al 2023
      1•0•0•0•Updated Jun 11, 2024Jun 11, 2024

    • crisp-public

      Public
      Image of final CS197 project code
      Python
      •1•0•0•0•Updated Jun 17, 2023Jun 17, 2023

    • grenephase1-paper

      Public
      0•0•0•0•Updated Mar 1, 2023Mar 1, 2023

    • mar2

      Public
      Repository of MAR2.0 paper
      0•0•0•0•Updated Feb 16, 2023Feb 16, 2023

    • grene-net.org

      Public
      0•0•0•0•Updated Aug 29, 2022Aug 29, 2022

    • locator2

      Public
      deep learning prediction of geographic location from individual genome sequences
      Python
      •
      Other
      •18•0•0•0•Updated Apr 9, 2022Apr 9, 2022

    • mar

      Public
      Scripts to build the Mutations Area Relationship
      MIT License
      •5•0•0•0•Updated Apr 2, 2022Apr 2, 2022

    • phenoselection

      Public
      R
      •0•0•0•0•Updated May 15, 2021May 15, 2021

    • napspg

      Public
      C++
      •0•0•0•0•Updated Apr 26, 2020Apr 26, 2020

    • genemaps

      Public
      R
      •
      MIT License
      •1•0•0•0•Updated Dec 2, 2019Dec 2, 2019

    • grenepool

      Public
      Code for pool seq analyses of the GrENE-net project (grene-net.org)
      Python
      •1•0•0•0•Updated Apr 12, 2019Apr 12, 2019

    • rbioclim

      Public
      Simple R package to download past present and future climate maps of the world
      R
      •8•0•0•0•Updated Dec 19, 2018Dec 19, 2018

    • popgensim

      Public
      Interactive Shiny app plotting simulations under 1-loci Wright Fisher populations
      HTML
      •
      MIT License
      •1•0•0•0•Updated Sep 10, 2018Sep 10, 2018