Table 2.
Statistics for indexing and aligning to the pan-MHC Chr 6 pangenome
| Aligner | Moni-align | vg map | vg giraffe |
|---|---|---|---|
| Total Chr 6 reads | 23,996,850 ± 6941 | 23,996,850 ± 6941 | 23,996,850 ± 6941 |
| Chr 6 aligned reads | 21,864,028 ± 6234 | 23,831,015 ± 6605 | 23,996,303 ± 6931 |
| MHC aligned reads | 584,793 ± 1059 | 640,116 ± 751 | 644,751 ± 746 |
| Index CPU time (min) | 107 | 109 | 4 |
| Index peak memory (GB) | 7.36 | 14.68 | 4.85 |
| Align CPU time (min) | 16,486 ± 1936 | 894 ± 376 | 258 ± 382 |
| Align peak memory (GB) | 11.48 ± 0.73 | 2.25 ± 0.17 | 4.05 ± 0.01 |
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Average and standard deviation for each category, calculated from the alignments of the five HG005 read subsamples produced by the three aligners.
