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Table 5 Run-time and memory usage. We compare seq-seq-pan to other whole genome aligners in terms of run-time and memory usage. Time and memory are indicated for single-threaded processes. Individual steps for TBA can be run in parallel

From: seq-seq-pan: building a computational pan-genome data structure on whole genome alignment

  Elapsed wall clock time (hh:mm) Maximum resident set size (GB)
Simulated dataset (13 genomes)
 seq-seq-pan 00:30 0.77
 progressiveMauve 02:33 4.93
 Mugsy 01:08 1.01
 progressiveCactus 03:41 1.00
 TBA 04:59 0.34
M. tuberculosis dataset (43 genomes)
 seq-seq-pan 02:06 1.20
 progressiveMauve 09:03 2.79
 Mugsy* 14:52 3.26
 progressiveCactus 47:09 5.54
 TBA 386 days 1.32
S. aureus dataset (144 genomes)
 seq-seq-pan 08:55 4.27
E. coli dataset (207 genomes)
 seq-seq-pan 68:19 8.5
  1. For the larger datasets (S.aureus and E.coli) only seq-seq-pan was used for the alignment due to run-time limitation of other tools. * Aligning 43 M. tuberculosis genomes caused a segmentation fault in Mugsy. This table lists data for aligning 39 genomes with Mugsy, but the whole set of 43 genomes for all other tools