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Table 3 Assembly results for human Rmap data simulated by OMSim using enzyme BspQI

From: Fast and efficient Rmap assembly using the Bi-labelled de Bruijn graph

Assembler

Run time

Peak Memory

No. of contigs

Max

Mean

GF(%)

MA

Valouev

\(> 360\) d

n/a

n/a

n/a

n/a

n/a

n/a

Solve

122.4 d

94.8

169

14,133 (124.6 Mbp)

2,036 (16.4 Mbp)

93.8

4

rmapper

12.1 h

7.9

3865

1,380 (14.4 Mbp)

144 (1.4 Mbp)

95.8

0

\({\textsc {rmapper}}\) 2.0

22.2 h

18.8

3524

1,752 (18.5 Mbp)

203 (2.0 Mbp)

96.7

0

  1. The dataset has 377894 Rmaps of mean size of 61 fragments and coverage 80x. See Table 2 for a description of the assembly statistics and notation. As described in the text, rmapper2.0 extracts bi-labels from Rmaps in both forward and reverse directions
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Algorithms for Molecular Biology

ISSN: 1748-7188