CLAST: CUDA implemented large-scale alignment search tool.

ABSTRACT:

Background

Metagenomics is a powerful methodology to study microbial communities, but it is highly dependent on nucleotide sequence similarity searching against sequence databases. Metagenomic analyses with next-generation sequencing technologies produce enormous numbers of reads from microbial communities, and many reads are derived from microbes whose genomes have not yet been sequenced, limiting the usefulness of existing sequence similarity search tools. Therefore, there is a clear need for a sequence similarity search tool that can rapidly detect weak similarity in large datasets.

Results

We developed a tool, which we named CLAST (CUDA implemented large-scale alignment search tool), that enables analyses of millions of reads and thousands of reference genome sequences,

SUBMITTER: Yano M 

PROVIDER: S-EPMC4271471 | biostudies-literature | 2014 Dec

REPOSITORIES: biostudies-literature