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Table 2 Computational cost of the similarity measures.

From: Fast and accurate clustering of noncoding RNAs using ensembles of sequence alignments and secondary structures

Method

 

Computation time (s)

 

Normal

Plus flanking regions

Plus unrelated sequences

proposed

95

222

199

FOLDALIGN

71748

226066

167228

LocARNA

9704

64679

30287

Stem kernel

61

179

138

LA kernel

71

163

160

CLUSTALW

4

43

6

  1. The total time for computing similarity matrices is shown for three versions of the dataset.