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1. microGWAS microGWAS Public template

   Bacterial GWAS analysis

   Python 46 3

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

6. 2024_aso_evolution 2024_aso_evolution Public

   Analysis script for the laboratory evolution experiments with ASOs

   GDScript