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Table 1 Statistics of the WGDdetector performance on the test data

From: WGDdetector: a pipeline for detecting whole genome duplication events using the genome or transcriptome annotations

Software Date type Clean genes Number of threadsa Elapsed time (hour)b Max memory used (Gb) Number ofsub-gene familiesc
ADHoRe A. thaliana (genome) 27,301 15; 1 1.79 (1.05 + 0.74) 0.94 6649
J. regia (genome) 32,436 15; 1 2.09 (1.23 + 0.86) 2.11 6127
P. trichocarpa (genome) 39,410 15; 1 4.18 (1.51 + 2.67) 2.52 22,676
X. laevis (genome) 41,073 15; 1 4.82 (2.24 + 2.58) 4.08 14,055
MCScanX A. thaliana (genome) 27,301 15; 1 1.62 (1.05 + 0.57) 0.73 14,363
J. regia (genome) 32,436 15; 1 2.64 (1.23 + 1.41) 1.44 4333
P. trichocarpa (genome) 39,410 15; 1 2.21 (1.51 + 0.70) 1.56 21,643
X. laevis (genome) 41,073 15; 1 6.27 (2.24 + 4.03) 1.65 23,721
WGDdetector A. thaliana (genome) 27,301 15 5.57 9.16 6729
A. thaliana (RNA-seq) 23,495 15 6.32 6.32 6072
J. regia (genome) 32,436 15 8.88 15.56 8504
P. trichocarpa (genome) 39,410 15 11.65 11.65 9818
P. trichocarpa (RNA-seq) 20,354 15 5.18 11.84 5191
X. laevis (genome) 41,073 15 19.23 35.46 9391
  1. aThe format of “15; 1” representing the number of threads when protein clustering and the dS calculating
  2. bThe format “S (X + Y)” represent the total elapsed time (S), the protein clustering elapsed time (X) and the dS calculating elapsed time (Y)
  3. cIn the software ADHoRe and MCScanX, all the homologous genes were recorded. In the WGDdetector pipeline, only the sub-gene families were recoded