pyseer

Here are 3 public repositories matching this topic...

gmboowa / rMAP-GWAS

Portable WDL/Cromwell workflow for microbial case-control GWAS from paired-end reads, producing annotated pyseer associations & HTML reports.

bioinformatics cromwell pathogen-genomics wdl-workflow genomic-surveillance panaroo pyseer microbial-gwas unitig-caller

Updated Jul 15, 2026
WDL

cinnetcrash / reffree-amr-gwas

Star

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

Updated Aug 3, 2026
Python

Qasim-Hussain-Code / pyseer_bgwas_analysis

Star

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

Updated Aug 30, 2026
Shell

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