Table 1 EpiExplorer's response time and memory footprint across thousands of actual user analyses
From: EpiExplorer: live exploration and global analysis of large epigenomic datasets
| Â | 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% |