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Table 3 True positive rate analysis for group size 3+3

From: Comparison of normalization methods for the analysis of metagenomic gene abundance data

Methods Human gut I Human gut II Marine
  B U B U B U
TMM 0.28 0.25 0.21 0.18 0.40 0.36
RLE 0.28 0.25 0.20 0.17 0.40 0.36
CSS 0.20 0.15 0.18 0.12 0.32 0.28
RCSS 0.28 0.27 0.21 0.18 0.39 0.33
Quantile-quantile 0.28 0.24 0.16 0.13 0.37 0.29
Upper quartile 0.29 0.24 0.21 0.18 0.40 0.29
Median 0.22 0.17 0.18 0.12 0.35 0.28
Total count 0.29 0.26 0.21 0.17 0.39 0.33
Rarefying 0.29 0.26 0.13 0.10 0.40 0.33
  1. 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 3+3 for 10% DAGs with an average fold-change of 3.
  2. B: balanced, 50% of effects added to each group.
  3. U: unbalanced, 100% effects added to one group only