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Table 4 Runtime for functions INCAindex and INCAtest based on synthetic data sets of different sizes

From: ICGE: an R package for detecting relevant clusters and atypical units in gene expression

Function

n

k= 2

k= 3

k= 5

k= 10

k= 15

k= 20

k= 30

k= 40

INCAindex

50

0.046"

0.09"

0.114"

0.527"

1.567"

3.46"

11.018"

25.131"

 

100

0.012"

0.0.089"

0.22"

1.059"

3.066"

6.784"

21.291"

49.394"

 

500

0.155"

0.535"

1.318"

5.962"

16.555"

35.726"

110.015"

252.279"

 

1000

0.37"

1.319"

3.122"

13.317"

35.965"

76.437"

230.809"

522.797"

INCAtest

50

5.446"

6.817"

10.685"

26.341"

51.138"

84.722"

176.928"

304.172"

np = 1000

100

7.718"

9.158"

13.208"

29.651"

54.897"

90.035"

185.46"

318.486"

 

500

168.429"

167.676"

169.206"

190.446"

207.657"

284.543"

428.009"

641.595"

 

1000

600"

581.966"

571.32"

615.7"

626.671"

697.621"

848.343"

1091.247"

  1. Runtime for functions INCAindex and INCAtest using synthetic data sets with different sample sizes, n = 50,100,500 or 500, and different number of groups k = 2,3,5,10,15,20,30 or 40. Function INCAtest is performed for np = 1000 resampling units.
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BMC Bioinformatics

ISSN: 1471-2105

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