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. | ||
| − | + | |bio domain=Sequence assembly (de novo assembly), | |
| − | |bio domain= | + | |bio method=Sequence assembly, |
| − | |bio method= | ||
|bio tech=Illumina, 454 | |bio tech=Illumina, 454 | ||
|created by=Sébastien Boisvert, François Laviolette & Jacques Corbeil. | |created by=Sébastien Boisvert, François Laviolette & Jacques Corbeil. | ||
| Line 10: | Line 9: | ||
|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, de Bruijn graphs,parallel,Illumina data |
| − | |language= | + | |language=C++, |
| − | |licence= | + | |licence=GPL, |
| − | |os= | + | |os=Linux, POSIX, |
}} | }} | ||
| − | + | Parallel de novo genome assemblies of next-gen sequencing data | |
{{Links}} | {{Links}} | ||
{{References}} | {{References}} | ||
{{Link box}} | {{Link box}} | ||
Latest revision as of 17:09, 2 December 2015
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Application data |
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| 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.
"Error: no local variable "counter" was set." is not a number.
Parallel de novo genome assemblies of next-gen sequencing data
Links
References
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