Table 2.
Method | Human gut I | Human gut II | Marine | |||
---|---|---|---|---|---|---|
B | U | B | U | B | U | |
TMM | 0.62 | 0.58 | 0.63 | 0.59 | 0.66 | 0.61 |
RLE | 0.63 | 0.55 | 0.62 | 0.60 | 0.66 | 0.59 |
CSS | 0.61 | 0.53 | 0.65 | 0.55 | 0.69 | 0.61 |
RCSS | 0.61 | 0.56 | 0.62 | 0.59 | 0.65 | 0.50 |
Quantile-quantile | 0.69 | 0.56 | 0.64 | 0.54 | 0.67 | 0.46 |
Upper quartile | 0.61 | 0.49 | 0.63 | 0.56 | 0.66 | 0.42 |
Median | 0.62 | 0.50 | 0.64 | 0.52 | 0.68 | 0.59 |
Total count | 0.61 | 0.54 | 0.63 | 0.57 | 0.65 | 0.49 |
Rarefying | 0.63 | 0.57 | 0.49 | 0.44 | 0.66 | 0.50 |
True positive rate at a fixed false positive rate of 0.01 for nine normalization methods and three metagenomic datasets using a group size of 10+10 for 10% DAGs with an average fold-change of 3.
B: balanced, 50% of effects added to each group.
U: unbalanced, 100% effects added to one group only