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

Table 5 Evaluation of S aureus (genome size 2,872,915 bp)

Assembler	Num	N50 (kb)	N50 corr. (kb)	Indel > 5 bp	Misjoins	Precision	Recall	# of valid contigs (> 200 bp)	# of invalid contigs (> 200 bp)
ABySS	302	29.2	24.8	9	5	75.06%	94.31%	219	83
ALLPATHS-LG	60	96.7	66.2	12	4	93.35%	92.28%	55	5
Bambus2	109	50.2	16.7	164	13	63.20%	61.69%	90	19
MSR-CA	94	59.2	48.2	10	12	90.14%	88.96%	79	15
SGA	1252	4	4	2	4	97.95%	95.61%	1134	118
SOAPdenovo	107	288.2	62.7	31	17	60.22%	60.35%	59	48
Velvet	162	48.4	41.5	14	14	82.66%	81.08%	136	26
CloudBrush	527	9.7	9.5	2	10	96.72%	96.00%	447	80

ISSN: 1471-2164