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Table 3 Result of the iDEGES approach does not necessarily convergent

From: TCC: an R package for comparing tag count data with robust normalization strategies

P G1

50%

70%

90%

Total

(a) iDEGES/TbT

    

convergent

69

70

83

222

cyclic

31

30

17

78

(b) iDEGES/edgeR

    

convergent

86

86

79

251

cyclic

14

14

21

49

(c) iDEGES/TDT

    

convergent

82

81

84

247

cyclic

18

19

16

53

(d) iDEGES/DESeq

    

convergent

99

97

100

296

cyclic

1

3

0

4

  1. The numbers of convergent and non-convergent (cyclic) results of 100 trials under PDEG = 20% are shown: (a) iDEGES/TbT, (b) iDEGES/edgeR, (c) iDEGES/TDT, and (d) iDEGES/DESeq. We defined the trial as ‘convergent’ if potential DEGs estimated in the (NC + 1)th iteration was the same as those in the (NC)th iteration and the number of iteration n required for obtaining the convergent result as NC (NC > = 1). We defined the trial as ‘cyclic’ if potential DEGs estimated in the (i + NP)th iteration were the same as those in the ith iteration and the cycle as NP (NP > = 2).