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Table 2 de novo human genome (NA18507) assemblies

From: Space-efficient and exact de Bruijn graph representation based on a Bloom filter

Method

Minia

C. & B.

ABySS

SOAPdenovo

Value of k chosen

27

27

27

25

Number of contigs (M)

3.49

7.69

4.35

-

Longest contig (kbp)

18.6

22.0

15.9

-

Contig N50 (bp)

1156

250

870

886

Sum (Gbp)

2.09

1.72

2.10

2.08

Nb of nodes/cores

1/1

1/8

21/168

1/16

Time (wall-clock, h)

23

50

15

33

Memory (sum

5.7

32

336

140

of nodes, GB)

    
  1. de novo human genome (NA18507) assemblies reported by our assembler (Minia), Conway and Bromage assembler [9], ABySS [8], and SOAPdenovo [7]. Contigs shorter than 100 bp were discarded. Assemblies were made without any pairing information.