/Are-reads-required

Primary LanguagePython

Are reads required? High-precision variant calling from bacterial genome assemblies

DOI

This repository holds methods, code and data for our manuscript:
Wick RR, Judd LM, Stinear TP, Monk IR. Are reads required? High-precision variant calling from bacterial genome assemblies. bioRxiv. 2025. doi:10.1101/2025.02.20.639404.

Contents:

  • data/: tarballs of all assemblies and VCFs created in the study
  • figures/: all main-text and supplementary figures
  • scripts/: all custom scripts used in the analysis
  • methods.md: all commands run for the analysis
  • tables.xlsx: Supplementary tables