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Table 6 Evaluation of R. sphaeroides (genome size 4,603,060 bp)

From: A de novo next generation genomic sequence assembler based on string graph and MapReduce cloud computing framework

Assembler Num N50 (kb) N50
corr. (kb)
Indel
> 5 bp
Misjoins Precision Recall # of valid
contig
(> 200 bp)
# of invalid
contig
(> 200 bp)
ABySS 1915 5.9 4.2 34 21 79.78% 86.13% 1744 171
ALLPATHS-LG 204 42.5 34.4 37 6 81.49% 81.22% 183 21
Bambus2 177 93.2 12.8 363 5 48.65% 46.21% 129 48
CABOG 322 20.2 17.9 24 10 92.55% 85.21% 310 12
MSR-CA 395 22.1 19.1 32 10 93.35% 90.55% 363 32
SGA 3066 4.5 2.9 4 4 97.23% 94.56% 2758 308
SOAPdenovo 204 131.7 14.3 406 8 70.86% 70.75% 134 70
Velvet 583 15.7 14.5 27 8 94.41% 92.37% 545 38
CloudBrush 661 12.8 12.7 10 2 96.21% 95.85% 567 94