Characterization and simulation of metagenomic nanopore sequencing data with Meta-NanoSim.

ABSTRACT:

Background

Nanopore sequencing is crucial to metagenomic studies as its kilobase-long reads can contribute to resolving genomic structural differences among microbes. However, sequencing platform-specific challenges, including high base-call error rate, nonuniform read lengths, and the presence of chimeric artifacts, necessitate specifically designed analytical algorithms. The use of simulated datasets with characteristics that are true to the sequencing platform under evaluation is a cost-effective way to assess the performance of bioinformatics tools with the ground truth in a controlled environment.

Results

Here, we present Meta-NanoSim, a fast and versatile utility that characterizes and simulates the unique properties of nanopore metagenomic reads. It improves upon stat

SUBMITTER: Yang C 

PROVIDER: S-EPMC10025935 | biostudies-literature | 2023 Mar

REPOSITORIES: biostudies-literature