ARCS: scaffolding genome drafts with linked reads

• DOI: 10.1093/bioinformatics/btx675
• Publication Date: 2017-10-20T19:13:35Z
• Authors: Sarah Yeo; Lauren Coombe; René L Warren; Justin Chu; Inanç Birol
• Keywords: 0301 basic medicine; 03 medical and health sciences; Genome, Human; High-Throughput Nucleotide Sequencing; Humans; Genomics; Sequence Analysis, DNA; Original Papers; Software

Abstract Motivation Sequencing of human genomes is now routine, and assembly shotgun reads increasingly feasible. However, assemblies often fail to inform about chromosome-scale structure due a lack linkage information over long stretches DNA—a shortcoming that being addressed by new sequencing protocols, such as the GemCode Chromium linked from 10 × Genomics. Results Here, we present ARCS, an application utilizes barcoding contained in further organize draft into highly contiguous assemblies. We show how contiguity ABySS H.sapiens genome can be increased six-fold, using moderate coverage (25-fold) data. expect ARCS have broad utility harnessing read data for connecting high-quality sequences drafts. Availability implementation https://github.com/bcgsc/ARCS/ Supplementary are available at Bioinformatics online.