Table 1

Number of false differential expression genes predicted by each method at adjusted P values (or false discovery rate) ≤0.05 separated by gene read count quantiles.

Expression quantile

Cuffdiff

DESeq

edgeR

limmaQN

limmaVoom

PoissonSeq

baySeq


100% (high expression)

28

5

3

0

0

7

1

75%

76

6

0

0

0

0

0

50%

84

27

1

2

0

0

0

25% (low expression)

5

9

0

87

0

0

0


Total

193

47

4

89

0

7

1


Rapaport et al. Genome Biology 2013 14:R95   doi:10.1186/gb-2013-14-9-r95

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