Fig. 2

Comparison of SPAdes, Velvet, ABySS and SOAPdenovo assemblies using various kmer settings prior and after CAP3 scaffolding. Twelve samples were selected for the comparisons (see Additional file 1 for details). a Average longest assembled contigs for each kmer setting using 21–22 nt reads are shown. See text for kmer settings used. Assemblies after CAP3 scaffolding are denoted with ‘_cap3’. b Average total number of assembled bases for each kmer setting using 21–22 nt reads is shown. c Average longest assembled contigs for each kmer setting using 21–25 nt reads are shown. d Average total number of assembled bases for each kmer setting using 21–25 nt reads is shown