v1.13-RC.1

v1.13-RC.1

• Added Pan1c_View report tarball
• Added Minigraph-Cactus as gtool to generate graphs (with/instead of PGGB)
• Documented rules
• Running Assemblathon_stats.pl by default to compute stats on input assemblies
• Removed usage of pggb.sif for PanGeTools.sif
• Added vg deconstruct option (get_VCF)
• Removed PAV option from config.yaml (script still exists but is untested)
• Updated getApps.sh
• Added cluster execution script (runSnakemakeSLURM.sh) and instructions
• Reduced constraints on chromosome names (everything allowed now, previously required chr prefix)
• Updated README