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Short description:
Please summarise the application in a few sentences. Avoid links here. A tool for mapping (short) DNA reads into reference sequences.
Software version:
Biological application domain(s) (Phylogenetics, Genomics, ...):
Principal bioinformatics method(s) (Assembly, Mapping, ...):
Read mapping,
Technology (Sanger, Illumina, 454, SOLiD, Ion Torrent, ...):
Interface (Command line, Web UI, Desktop GUI, SOAP WS, HTTP WS, API, QL):
Resource type (Command-line tool, Web application, Desktop application, Script, Suite, Workbench, Database portal, Workflow, Plug-in, Library, Web API, Web service, SPARQL endpoint):
University of Helsinki,
===Features=== * Align reads using either k-mismatches or k-errors (mismatches, insertions and deletions) model. * Algorithms are based on Burrows-Wheeler transform and backward backtracking. * Includes a novel data structure called the rotation index that finds alignments with higher number of mismatches in feasible time (but requires a larger index and fixed length query reads).
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