This page contains web services provided by the Center for Algorithmic Biotechnology, St. Petersburg State University, Russia.
QUAST – quality assessment tool for genome assemblies. QUAST evaluates genome assemblies by computing various correctness, contiguity, and completeness quality metrics. It works both with and without reference genomes. The tool accepts multiple assemblies, thus is suitable for comparative analysis. See more details in Gurevich et al., 2013 and on the project website.
Nerpa (will appear soon) – a tool for discovering biosynthetic gene clusters (BGCs) of nonribosomal peptides (NRPs). Nerpa uses third-party genome mining software for predicting putative BGCs in genome sequences, matches them with known NRPs structures, and reports the most promising BGC-NRP pairs.
NPvis (will appear soon) – versatile interactive visualizer for tandem mass spectra (MS / MS) fragmentation of Natural Products (NPs). The tool accepts as input molecules in popular chemical formats such as SMILES and MDL MOL as well as MS / MS data in common formats like mzML and MGF. NPvis allows users to match any annotated experimental peak to the corresponding chemical structure fragmentation.
Instruments for in silico Natural Product Discovery (Dereplicator, VarQuest, Dereplicator+, RiPPquest/MetaMiner) are available as web services on the GNPS platform (simple registration is needed).
the programs above and all other software developed by the Center are freely available as command-line tools working on Linux and macOS. See the full list of our bioinformatics instruments here.
The Center for Algorithmic Biotechnology is supported by St.Petersburg State University, St. Petersburg, Russia (grant ID PURE 51555639). The web services are hosted at the Research park of St.Petersburg State University "Computing Center".