Table 1

EpiExplorer's response time and memory footprint across thousands of actual user analyses

Putative enhancers

CpG islands (specific)

Transcription start sites

Gene promoters (-5kb to 1kb)

5hmC hotspots (Szulwach [35])

Genome-wide tiling regions (5kb)


Number of genomic regions

1,762

27,638

36,655

36,655

82,221

616,093

Preprocessing time (h)

0.2

0.8

0.9

0.9

1.5

17

Search index size (MB)

11

145

122

127

240

962

Mean query time (s)

0.02

0.06

0.12

0.13

0.2

0.8

95th percentile query time (s)

0.07

0.34

0.5

0.57

0.64

3.2

Percent queries completed in ≤2 s

100%

99.9%

99.7%

99.1%

99.1%

88%


Halachev et al. Genome Biology 2012 13:R96   doi:10.1186/gb-2012-13-10-r96

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