Three bacterial GWAS methods all rolled into one easy-to-use R package
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Apr 16, 2024 - R
#
bacterial-gwas
Here are 5 public repositories matching this topic...
PowerBacGWAS: Power calculations for Bacterial GWAS
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Feb 2, 2022 - Python
PRAWNS: A fast and scalable bioinformatics tool that generates an efficient pan-genome representation of closely related whole genomes to provide a concise list of genomic features
bioinformatics genomics computational-biology microbial-genomics population-genomics comparative-genomics genome-analysis whole-genome-sequencing antibiotic-resistance parallel-programming association-studies whole-genome-alignment antimicrobial-resistance pan-genome-analysis bacterial-gwas whole-genome-genotyping
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Jan 2, 2023 - C++
Reference-free AMR GWAS + mobilome triage: unitig-based pyseer mixed-model GWAS that flags novel resistance determinants and scores their phylogenetic mobility
bioinformatics snakemake antimicrobial-resistance mobile-genetic-elements bacterial-gwas genomic-surveillance unitig pyseer
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Aug 3, 2026 - Python
Bacterial genome wide association study (bGWAS) pipeline identifying genetic determinants of penicillin resistance across 604 Streptococcus pneumoniae clinical isolates using pyseer, k-mers, and linear mixed models.
bioinformatics-pipeline population-structure k-mers antimicrobial-resistance bacterial-gwas streptococcus-pneumoniae pyseer inear-mixed-models genotype-phenotype-association clusters-of-orthologous-groups ingle-nucleotide-polymorphisms
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Aug 30, 2026 - Shell
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