Collect speed results, sim accuracy results, and real calling results for Giraffe all together

[adamnovak]

Might want to attach WDL running to the SnakeMake to fill in the calling results automatically.

Statistics:

• Mapping speed
• Softclipped and unmapped bases
• Simulated mapping accuracy
• Variant calling accuracy

Conditions:

• Mapping to HPRC M/C graph with Giraffe (minimum condition for all techs to say "it works" and fix a version)
  • Might need to add next pangenome release in before paper comes out
• Mapping to linear stick graph with Giraffe
• Mapping to 64-haplotype downsampled 1KG graph from original Giraffe paper
• Mapping to linear reference with Minimap2 (but also BWA-MEM for Illumina)
• Maybe mapping to a more collapsed graph as an internal metric

Read Sets:

• HiFi
• R10
• Illumina (paired end) (non-chaining codepath) (haplotype sampling mode only)
  • Lets us say we have one mapper for long and short reads even though it's a different codepath, "universal mapper"

Could be a big Google Sheets.