Effects of error-correction of heterozygous next-generation sequencing data

BMC Bioinformatics

Table 1 The SOAPdenovo2 E. coli assembly.

Correction Algorithm	How Corrected	Contigs	N50	Largest Contig
	Raw reads	486825	100	7110
Quake	Corrected together	25642	661	28841
Quake	Corrected separately	18153	1143	36891
ECHO	Corrected together	392668	100	10094
ECHO	Corrected separately	348885	100	9563

There were five different assemblies. The assembly of raw reads involved no correction. For both Quake and ECHO, the reads were corrected separately by strain and corrected together with reads from both strains present then assembled. The number of contigs, the N50 size and the length of the largest contig of each assembly is shown.

ISSN: 1471-2105