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Table 2 Performance for human genome assembly

From: BASE: a practical de novo assembler for large genomes using long NGS reads

  SOAPdenovo2 BASE
Wall time (h) CPU time (h) Max memory (GB) Wall time (h) CPU time (h) Max memory (GB)
YH, 100 bp, 36X Index 4 46 163 5 18 200
Contig 2 2 41 4 53 140
Total 6 48 163 9 71 200
YH, 150 bp, 64X Index 6 75 201 11 36 192
Contig 1 1 33 5 80 225
Total 7 76 201 16 116 225
NA12878D, 150 bp Index 9 141 477 9 34 194
Contig 1 1 24 7 144 142
Total 10 141 477 16 178 194
  1. For X Ten data, we used a different machine with larger memory to finish SOAPdenovo2 and BASE assembly, so it is improper to compare the time usage of this dataset to other dataset. Other dataset are all performed in the same machine with 24 CPU