UProC: tools for ultra-fast protein domain classification.

ABSTRACT: MOTIVATION: With rapidly increasing volumes of biological sequence data the functional analysis of new sequences in terms of similarities to known protein families challenges classical bioinformatics. RESULTS: The ultrafast protein classification (UProC) toolbox implements a novel algorithm ('Mosaic Matching') for large-scale sequence analysis. UProC is by three orders of magnitude faster than profile-based methods and in a metagenome simulation study achieved up to 80% higher sensitivity on unassembled 100?bp reads. AVAILABILITY AND IMPLEMENTATION: UProC is available as an open-source software at https://github.com/gobics/uproc. Precompiled databases (Pfam) are linked on the UProC homepage: http://uproc.gobics.de/. CONTACT: [e-mail]. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

SUBMITTER: Meinicke P 

PROVIDER: S-EPMC4410661 | biostudies-literature | 2015 May

REPOSITORIES: biostudies-literature