Changelog

[0.1] - 2026-05-27

Initial release of the PGGB pangenome build workflow.
Steps: PanSN rename (mapped over a strain FASTA collection) → FASTA collection concat → PGGB → odgi stats.
Outputs the smoothed GFA1 (gzipped), odgi .og binary graph, 2D layout (.og.lay), layout/viz PNGs, run log, optional VCF via vg deconstruct, graph stats TSV, and MultiQC HTML report collating odgi stats + viz across the build.
Validated end-to-end on the 8-strain Plasmodium vivax v3 reference pangenome (~25 Mb haploid genomes; runtime ~28 min on 16 cores); graph nucleotide length within 2.7 % of the v2 native reference build. Also exercised on PGGB's own DRB1-3123 CI fixture (12 HLA haplotypes, 50 KB).