Methods

Select a QC scheme to view its specific methods and notes.

• REFSEQ-QC-v1

  Quality control of NCBI RefSeq reference genomes using simulated short reads, Shovill assembly, and CheckM2 completeness/contamination checks.

• qualibact-v1

  Species-specific thresholds derived from AllTheBacteria (2.4M genomes) and RefSeq complete genomes using Isolation Forest outlier detection.

• qualibact-v2

  Refined thresholds incorporating additional genome sets beyond AllTheBacteria, with species-specific adjustments to qualibact-v1 criteria.