Binnacle: Using Scaffolds to Improve the Contiguity and Quality of Metagenomic Bins.

ABSTRACT: High-throughput sequencing has revolutionized the field of microbiology, however, reconstructing complete genomes of organisms from whole metagenomic shotgun sequencing data remains a challenge. Recovered genomes are often highly fragmented, due to uneven abundances of organisms, repeats within and across genomes, sequencing errors, and strain-level variation. To address the fragmented nature of metagenomic assemblies, scientists rely on a process called binning, which clusters together contigs inferred to originate from the same organism. Existing binning algorithms use oligonucleotide frequencies and contig abundance (coverage) within and across samples to group together contigs from the same organism. However, these algorithms often miss short contigs and contigs from regions with unusu

SUBMITTER: Muralidharan HS 

PROVIDER: S-EPMC7945042 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature