Sketching and sampling approaches for fast and accurate long read classification.

ABSTRACT:

Background

In modern sequencing experiments, quickly and accurately identifying the sources of the reads is a crucial need. In metagenomics, where each read comes from one of potentially many members of a community, it can be important to identify the exact species the read is from. In other settings, it is important to distinguish which reads are from the targeted sample and which are from potential contaminants. In both cases, identification of the correct source of a read enables further investigation of relevant reads, while minimizing wasted work. This task is particularly challenging for long reads, which can have a substantial error rate that obscures the origins of each read.

Results

Existing tools for the read classification problem are often alignment or index-base

SUBMITTER: Das A 

PROVIDER: S-EPMC9624007 | biostudies-literature | 2022 Oct

REPOSITORIES: biostudies-literature