MCRL: using a reference library to compress a metagenome into a non-redundant list of sequences, considering viruses as a case study.

ABSTRACT:

Motivation

Metagenomes offer a glimpse into the total genomic diversity contained within a sample. Currently, however, there is no straightforward way to obtain a non-redundant list of all putative homologs of a set of reference sequences present in a metagenome.

Results

To address this problem, we developed a novel clustering approach called 'metagenomic clustering by reference library' (MCRL), where a reference library containing a set of reference genes is clustered with respect to an assembled metagenome. According to our proposed approach, reference genes homologous to similar sets of metagenomic sequences, termed 'signatures', are iteratively clustered in a greedy fashion, retaining at each step the reference genes yielding the lowest E values, and terminating when sig

SUBMITTER: Tadmor AD 

PROVIDER: S-EPMC10060711 | biostudies-literature | 2022 Jan

REPOSITORIES: biostudies-literature