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Table 3 Running time and memory use while performing diversity analyses

From: EggLib: processing, analysis and simulation tools for population genetics and genomics

File EggLib libsequence
  Time (s) Memory (MB) Time (s) Memory (MB)
1000 files (49.8 MB) minimal 4.17 9.3 - -
1000 files (49.8 MB) standard 9.54 9.5 12.34 1.8
1000 files (49.8 MB) LD 26.43 151.7 47.87 124.8
1 file (33.0 MB) minimal 4.35 104.0 - -
1 file (33.0 MB) standard 6.84 92.6 2.63 44.1
1 file (6.0 KB) coding 0.16 8.7 0.06 0.1
  1. Note: We analyzed 1000 simulated alignments of 50 sequences (plus one outgroup) of 1000 bp and a single alignment of 7 sequences of 4,920,321 bp. A subset of this alignment containing 6 sequences of 999 bp was analyzed for coding statistics. The minimal set of statistics was the number of polymorphic sites, θ estimators and Tajima's D. The standard set of statistics included minimal statistics plus haplotype-based statistics. Linkage disequilibrium (LD) was computed between polymorphic sites. For coding sequences, non-synonymous and synonymous θ estimators were calculated (for EggLib, the functions of Bio++ are called).