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Table 4 Average FPR and TPR by adjusted analysis on un-normalized/normalized simulated OTU tables

From: Powerful and robust non-parametric association testing for microbiome data via a zero-inflated quantile approach (ZINQ)

Sample size = 531         
  Count Rarefaction TSS CSS
α-level 0.05 0.01 0.05 0.01 0.05 0.01 0.05 0.01
  FPR
Corncob 0.1077 0.0498 0.0919 0.0400 - - - -
DESeq2 0.0921 0.0395 0.0779 0.0312 - - - -
EdgeR 0.1034 0.0415 0.0893 0.0331 - - - -
LDM 0.0501 0.0096 0.0499 0.0096 0.0501 0.0096 0.0489 0.0095
Limma 0.0561 0.0128 0.0719 0.0203 - - - -
Linear regression 0.0475 0.0085 0.0469 0.0083 0.0472 0.0083 0.0488 0.0098
MetagenomeSeq - - - - - - 0.1539 0.0759
Monocle 0.7261 0.6695 0.6493 0.5839 0.0486 0.0086 0.0501 0.0102
QRank 0.0493 0.0101 0.0499 0.0100 0.0503 0.0098 0.0496 0.0099
ZINQ-MinP 0.0483 0.0094 0.0484 0.0096 0.0488 0.0096 0.0472 0.0091
ZINQ-Cauchy 0.0533 0.0107 0.0535 0.0106 0.0539 0.0104 0.0530 0.0109
  TPR
Corncob 0.4544 0.3093 0.4018 0.2615 - - - -
DESeq2 0.3289 0.2346 0.2859 0.1912 - - - -
EdgeR 0.4046 0.2782 0.3653 0.2395 - - - -
LDM 0.3283 0.1850 0.3094 0.1677 0.3283 0.1850 0.4150 0.2700
Limma 0.3981 0.2636 0.3701 0.2369 - - - -
Linear regression 0.3358 0.1867 0.3030 0.1573 0.3214 0.1735 0.4080 0.2735
MetagenomeSeq - - - - - - 0.4900 0.3731
Monocle 0.8637 0.8275 0.8055 0.7579 0.3251 0.1766 0.4107 0.2761
QRank 0.3887 0.2346 0.2981 0.1641 0.3634 0.2160 0.3593 0.2117
ZINQ-MinP 0.4437 0.2733 0.3452 0.1945 0.4188 0.2535 0.4176 0.2519
ZINQ-Cauchy 0.4919 0.3156 0.3941 0.2333 0.4666 0.2943 0.4627 0.2919
  1. : power of a method that inflates type I error
  2. +: power of a method that deflates type I error
  3. Results by the various methods on un-normalized/normalized simulated OTU table generated from the proposed two-part quantile model fitted on CARDIA data, including the average FPR and average TPR over 1000 runs according to significance cutoffs 0.05 and 0.01