Ray

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Application data

Created by Sébastien Boisvert, François Laviolette & Jacques Corbeil.
Biological application domain(s) Sequence assembly (de novo assembly)
Principal bioinformatics method(s) Sequence assembly
Technology Illumina, 454
Created at Université Laval, Québec, Canada
Maintained? Yes
Input format(s) paired, paired interleaved, single reads: .fasta .fasta.gz .fasta.bz2 .fastq .fastq.gz .fastq.bz2 .sff
Output format(s) .fasta, .txt
Software features MPI 2.2, de Bruijn graphs, parallel, Illumina data
Programming language(s) C++
Licence GPL
Operating system(s) Linux, POSIX

Summary: de novo genome assembly is now a challenge because of the overwhelming amount of data produced by sequencers. Ray assembles reads obtained with new sequencing technologies (Illumina, 454, SOLiD) using MPI 2.2 -- a message passing inferface standard.

Parallel de novo genome assemblies of next-gen sequencing data

Links


References

  1. Sébastien Boisvert, François Laviolette, Jacques Corbeil.. 2010. Journal of Computational Biology


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