Overview

DisCVR: Rapid viral diagnosis from NGS data

DisCVR is a computer program which allows diagnosticians to detect known human viruses in clinical samples from Next Generation Sequencing (NGS) data. It works by creating a database of short nucleotide sequences, called k-mers, which are extracted from viral genomes. K-mers of 31 bases in length are generated by sliding a window along a sequence, 1 nucleotide base at a time. Only unique k-mers from a set of viruses are included in the database and assigned taxonomic labels. To investigate a patient sample sequenced using NGS, the database is queried to find exact matches with k-mers. The output shows a list of all viruses found in the sample. In addition, reference-based assembly can be used to assess the significance of matches.

DisCVR is a fast and accurate tool designed to analyse NGS data and validate the results interactively on computers with limited resources. At present, DisCVR is a human viral diagnostic tool, but it could be extended to include non-viral human pathogens as well as pathogens of other hosts.

Download Windows Click here
Linux and Mac OS (will be released soon)

Operating Manual Explains the steps to install and use DisCVR. It can be found in the downloaded folder
References
  • Kanalyze: A Fast Versatile Pipelined K-mer Toolkit, Bioinformatics 30(14) (2014) 2070-2072
  • TANOTI: A rapid BLAST-guided read mapper for small, divergent genomes.(manuscript communicated)
  • JFreechart: Free Java chart library
Contact Please send your comments, suggestions or bug reports to Maha Maabar

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