Colib'read on galaxy: a tools suite dedicated to biological information extraction from raw NGS reads.

ABSTRACT:

Background

With next-generation sequencing (NGS) technologies, the life sciences face a deluge of raw data. Classical analysis processes for such data often begin with an assembly step, needing large amounts of computing resources, and potentially removing or modifying parts of the biological information contained in the data. Our approach proposes to focus directly on biological questions, by considering raw unassembled NGS data, through a suite of six command-line tools.

Findings

Dedicated to 'whole-genome assembly-free' treatments, the Colib'read tools suite uses optimized algorithms for various analyses of NGS datasets, such as variant calling or read set comparisons. Based on the use of a de Bruijn graph and bloom filter, such analyses can be performed in a few hours, u

SUBMITTER: Le Bras Y 

PROVIDER: S-EPMC4750246 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature