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Table 8 Lerna results on real PacBio E.Coli K-12 reads

From: Lerna: transformer architectures for configuring error correction tools for short- and long-read genome sequencing

k

Test PPL

NG50

15

240.57

101,440

17

240.53

133,690

19

240.59

181,898

21

240.62

166,229

23

240.65

92,537

25

240.67

92,859

27

240.69

74,776

31

240.70

58,332

37

240.64

32,160

  1. Simulated annealing finds \(k=17\) as the best k value, which is also evident from the fact that it generated the minimum test perplexity. This value is quite close to \(k=19\) that generates the highest NG50 on assembly. Both of these k-values are highlighted in the Table.
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BMC Bioinformatics

ISSN: 1471-2105

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