Table 2 Average computation times for obtaining normalization factors
From: TCC: an R package for comparing tag count data with robust normalization strategies
P G1 | 50% | 70% | 90% |
|---|---|---|---|
(a) TMM | |||
PDEG = 5% | 0.13 | 0.18 | 0.22 |
PDEG = 15% | 0.16 | 0.19 | 0.15 |
PDEG = 25% | 0.17 | 0.14 | 0.15 |
(b) DEGES/TbT | |||
PDEG = 5% | 1492.92 | 1423.55 | 1573.23 |
PDEG = 15% | 1556.93 | 1510.17 | 1408.46 |
PDEG = 25% | 1527.08 | 1483.09 | 1543.80 |
(c) DEGES/edgeR | |||
PDEG = 5% | 3.04 | 3.08 | 3.24 |
PDEG = 15% | 3.08 | 3.05 | 2.89 |
PDEG = 25% | 2.99 | 2.92 | 3.05 |
(d) iDEGES/edgeR | |||
PDEG = 5% | 8.80 | 8.95 | 9.53 |
PDEG = 15% | 8.94 | 8.91 | 8.39 |
PDEG = 25% | 8.75 | 8.39 | 8.92 |
(e) iDEGES/TDT | |||
PDEG = 5% | 17.92 | 17.54 | 18.24 |
PDEG = 15% | 19.85 | 19.45 | 18.74 |
PDEG = 25% | 21.17 | 20.74 | 21.16 |
(f) iDEGES/DESeq | |||
PDEG = 5% | 17.88 | 17.54 | 18.34 |
PDEG = 15% | 19.96 | 19.43 | 18.72 |
PDEG = 25% | 21.17 | 20.75 | 21.27 |