Difference between revisions of "Ray"
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{{Bioinformatics application | {{Bioinformatics application | ||
| − | |sw 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. | + | |sw 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. |
|sw logo=Logo.png | |sw logo=Logo.png | ||
|bio domain=genomics | |bio domain=genomics | ||
|bio method=de novo assembly with MPI | |bio method=de novo assembly with MPI | ||
| − | |bio tech= | + | |bio tech=Illumina, 454 |
| − | |created by=Sébastien Boisvert, François Laviolette & Jacques Corbeil. | + | |created by=Sébastien Boisvert, François Laviolette & Jacques Corbeil. |
|created at=Université Laval, Québec, Canada | |created at=Université Laval, Québec, Canada | ||
|maintained=Yes | |maintained=Yes | ||
|input format=paired, paired interleaved, single reads: .fasta .fasta.gz .fasta.bz2 .fastq .fastq.gz .fastq.bz2 .sff | |input format=paired, paired interleaved, single reads: .fasta .fasta.gz .fasta.bz2 .fastq .fastq.gz .fastq.bz2 .sff | ||
|output format=.fasta, .txt | |output format=.fasta, .txt | ||
| − | |sw feature= | + | |sw feature=* MPI 2.2 * ISO/IEC C++ 2003 * de Bruijn * paralleled * Illumina data |
| − | |language= | + | |language=* MPI 2.2 C++ |
| − | |licence= | + | |licence=GNU GENERAL PUBLIC LICENSE Version 3, 29 June 2007 |
| − | |os= All POSIX (Linux/BSD/UNIX-like OSes), Linux | + | |os=All POSIX (Linux/BSD/UNIX-like OSes), Linux |
}} | }} | ||
see http://denovoassembler.sf.net/ | see http://denovoassembler.sf.net/ | ||
Revision as of 18:53, 7 December 2010
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Application data |
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| Created by | Sébastien Boisvert, François Laviolette & Jacques Corbeil. |
|---|---|
| Biological application domain(s) | genomics |
| Principal bioinformatics method(s) | de novo assembly with MPI |
| 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 |
|
| Programming language(s) |
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| Licence | GNU GENERAL PUBLIC LICENSE Version 3, 29 June 2007 |
| Operating system(s) | All POSIX (Linux/BSD/UNIX-like OSes), Linux |
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. 200px|right
"Error: no local variable "counter" was set." is not a number.
see http://denovoassembler.sf.net/
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