Table 2.

All TRs were examined from pggb and cactus, while TRs overlapping SVs were examined for minigraph. Genotypable TRs are TRs where all 12 assemblies had a known path through the local graph structure. VNTRs are genotypable TRs that had at least one sample with a different number of TR counts. CPU and Memory indicate the compute resources needed to identify the paths of all assemblies through all examined TRs

Pangenome	TRs examined	Genotypable TRs	VNTRs	CPU (h)	Memory (Gb)
Pggb	9566	8939 (93.5%)	7854 (87.9%)	18.17	7.5
Cactus	9566	8910 (93.1%)	7859 (88.2%)	24.17	7.7
Minigraph	5731	5504 (96.5%)	5457 (99.1%)	0.19	0.5