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Table 5 Comparison of meta-methods to NextGenMap and BWA

From: MaxSSmap: a GPU program for mapping divergent short reads to genomes with the maximum scoring subsequence

 (a) Percent of one million 251 bp reads mapped correctly to theE.coli genome. Shown in parenthesis are incorrectly mapped reads and remaining are rejected
Div BWA NextGenMap NextGenMap+ NextGenMap+
    MaxSSmap_fast MaxSSmap
  Reads without gaps
.1 89 (1.1) 87 (1) 96 (1.3) 97 (1.4)
.2 24 (0.5) 72 (1) 95 (1.5) 96.7 (1.5)
.3 0.6 (0) 26 (0.5) 91 (1.4) 94.8 (1.3)
  Reads with gaps
.1 85 (3) 78 (1) 92 (1.5) 95.7 (1.4)
.2 20 (0.5) 60 (1) 92 (2.1) 94 (2.5)
.3 0.5 (0) 19 (0.4) 82 (2.9) 90.5 (3.5)
(b) Time in minutes to map one million 251 bp reads to the E.coli genome
Div BWA NextGenMap NextGenMap+ NextGenMap+
    MaxSSmap_fast MaxSSmap
  Reads without gaps
.1 0.7 1.2 25 34
.2 0.5 1.9 57 77
.3 0.4 2.1 148 204
  Reads with gaps
.1 0.7 1.5 38 60
.2 0.5 2.1 68 109
.3 0.4 2.1 162 222
  1. See Table 3 caption for details about reads.