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Table 1 Benchmark of SNP detection

From: Polymorphic edge detection (PED): two efficient methods of polymorphism detection from next-generation sequencing data

Method ERR3063487 DRR054198
bwa + GATK 11,095 ± 60 154,105 ± 2761
k-mer 19,263 ± 22 187,177 ± 194
bidirectional 4149 ± 2 36,657 ± 309
  1. Short reads of Caenorhabditis elegans (ERR3063487, 100base, 13,549,514 pairs) and Oryza sativa L. cv. Koshihikari (DRR054198, 101base, 191,991,610 pairs) were analyzed by single computer with Intel Pentium G3250 @ 3.20GHz (2 cores) and 32Gb memory. Three times run averages with standard deviations of CPU user time (seconds) by time command were shown