Author: Jiao Chen; Jiayu Shang; Jianrong Wang; Yanni Sun
Title: A binning tool to reconstruct viral haplotypes from assembled contigs Document date: 2019_7_16
ID: 2basllfv_51
Snippet: In addition to simulated contigs, we also tested VirBin on assembled contigs by two de novo assembly tools: a generic assembly tool SGA (Simpson and Durbin, 2012) and a viral haplotype reconstruction tool PEHaplo. The assembled contigs were evaluated by MetaQuast (Mikheenko et al., 2015) and the results are listed in Table S2 in the Supplementary Data file. Both PEHaplo and SGA produced enough contigs to cover almost all the five haplotypes. But .....
Document: In addition to simulated contigs, we also tested VirBin on assembled contigs by two de novo assembly tools: a generic assembly tool SGA (Simpson and Durbin, 2012) and a viral haplotype reconstruction tool PEHaplo. The assembled contigs were evaluated by MetaQuast (Mikheenko et al., 2015) and the results are listed in Table S2 in the Supplementary Data file. Both PEHaplo and SGA produced enough contigs to cover almost all the five haplotypes. But contigs produced by PEHaplo have larger N50 values than contigs by SGA. The contigs are paired with haplotypes based on the highest sequence similarity. All of the contigs and their originating haplotypes have similarity of at least 98%.
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