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@microbial-pangenomes-lab

Microbial Pangenomes Lab

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  1. microGWAS microGWAS Public template

    Bacterial GWAS analysis

    Python 22 1

  2. plate_reader_evolution plate_reader_evolution Public

    Evolution experiments in microplate formats

    Python

  3. panfeed panfeed Public

    A k-mer counter that streams gene-cluster specific k-mers, while keeping k-mer positional information. Useful for microbial GWAS analyses with higher interpretability.

    Python 8

  4. 2022_sarscov2_epistasis 2022_sarscov2_epistasis Public

    Estimating epistatic interactions from SARS-CoV-2 genomes

    Jupyter Notebook 1 1

  5. 2021_ecoli_pathogenicity 2021_ecoli_pathogenicity Public

    Bacterial GWAS for E. coli BSI genetic determinants

    Jupyter Notebook 1 1

Repositories

Showing 10 of 14 repositories
  • 2022_sarscov2_epistasis Public

    Estimating epistatic interactions from SARS-CoV-2 genomes

    microbial-pangenomes-lab/2022_sarscov2_epistasis’s past year of commit activity
    Jupyter Notebook 1 MIT 1 0 0 Updated Jul 12, 2024
  • microbial-pangenomes-lab.github.io Public
    microbial-pangenomes-lab/microbial-pangenomes-lab.github.io’s past year of commit activity
    HTML 0 MIT 0 0 0 Updated Jul 10, 2024
  • microGWAS Public template

    Bacterial GWAS analysis

    microbial-pangenomes-lab/microGWAS’s past year of commit activity
    Python 22 MIT 1 6 0 Updated Jul 10, 2024
  • plate_reader_evolution Public

    Evolution experiments in microplate formats

    microbial-pangenomes-lab/plate_reader_evolution’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Jul 1, 2024
  • panfeed Public

    A k-mer counter that streams gene-cluster specific k-mers, while keeping k-mer positional information. Useful for microbial GWAS analyses with higher interpretability.

    microbial-pangenomes-lab/panfeed’s past year of commit activity
    Python 8 Apache-2.0 0 0 0 Updated Jun 3, 2024
  • ChiBio Public Forked from HarrisonSteel/ChiBio

    ChiBio primary operating system.

    microbial-pangenomes-lab/ChiBio’s past year of commit activity
    Python 0 28 0 0 Updated May 31, 2024
  • 2023_ecoli_protection Public
    microbial-pangenomes-lab/2023_ecoli_protection’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Feb 13, 2024
  • panaroo Public Forked from gtonkinhill/panaroo

    An updated pipeline for pangenome investigation

    microbial-pangenomes-lab/panaroo’s past year of commit activity
    Python 0 MIT 33 0 0 Updated Dec 7, 2023
  • SalisLabCode Public Forked from hsalis/SalisLabCode

    Models, design algorithms, and other software related to Salis lab publications

    microbial-pangenomes-lab/SalisLabCode’s past year of commit activity
    Python 0 18 0 0 Updated Aug 21, 2023
  • panfeed_benchmark_scripts Public

    This repository contains the scripts that were used to test panfeed and visualize results of other programs.

    microbial-pangenomes-lab/panfeed_benchmark_scripts’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Mar 7, 2023
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