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Table 6 Number of aligned positions pairs (in \(10^9\))

From: AlfaPang: alignment free algorithm for pangenome graph construction

Dataset

AlfaPang+

pggb

Minigraph-Cactus

S. cerevisiae 16

  2.20

  1.52

  1.26

S. cerevisiae 32

  8.47

  6.33

  5.14

S. cerevisiae 64

 33.81

 25.81

 21.00

S. cerevisiae 118

108.69

 90.95

 71.50

S. cerevisiae 16*

  1.45

  1.40

  1.25

S. cerevisiae 32*

  5.79

  5.65

  4.99

S. cerevisiae 64*

 22.64

 22.32

 20.06

S. cerevisiae 118*

 76.61

 76.67

 68.94

E. coli 50

  5.55

  5.08

  4.72

E. coli 100

 26.09

 25.31

 19.04

E. coli 200

 88.94

 92.37

 73.70

E. coli 400

354.57

343.97

298.79

  1. * Graphs constructed separately for each chromosome. A pair of positions from input sequences is aligned in a graph if they are both represented by the same position in a label of the same vertex
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Algorithms for Molecular Biology

ISSN: 1748-7188