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

Table 3 Evaluation of assemblies of the simulated dataset (100×, 36 bp, 1% error) and dataset D1 with CloudBrush, Contrail, Velvet, and Edena

Dataset	Assembler	# of contigs¹	N50	Largest contig size	Precision	Recall	# of valid contigs¹	# of invalid contigs¹	Runtime (sec)
100 × 36 bp 1% error	CloudBrush	447	17907	95387	99.79%	97.51%	420	27	6218
	Contrail	906	8982	40066	99.72%	96.76%	858	48	5499
	Velvet	507	15632	100501	99.68%	96.95%	498	9	590
	Edena	4012	1436	11264	98.84%	91.85%	3868	144	2524
D1 dataset	CloudBrush	521	15149	66832	99.26%	97.10%	481	40	5555
	Contrail	930	8605	40066	99.73%	96.81%	886	44	4789
	Velvet	505	15862	73042	99.62%	96.90%	494	11	452
	Edena	889	9045	44942	99.18%	96.34%	823	66	1401

ISSN: 1471-2164