Difference between revisions of "CLCbio Genomics Workbench"
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{{Bioinformatics application | {{Bioinformatics application | ||
| − | |sw summary=De novo and reference assembly of Sanger, 454, Solexa, Helicos, and SOLiD data. Alignment in base- and color-space, and mixed mode | + | |sw summary=De novo and reference assembly of Sanger, 454, Solexa, Helicos, and SOLiD data. Support for paired and single reads. Alignment in base- and color-space, and mixed mode of any of the above including both short and long reads. Includes tools for SNP and small indel detection and annotation. Runs equally well on Windows, Mac OS X and Linux platforms, plus server/enterprise options for scalability of computation and storage. |
|bio domain=Genomics, Whole Genome Resequencing, De-novo assembly, SNP discovery, InDel discovery, ChIP-Seq, RNA-Seq and much more... | |bio domain=Genomics, Whole Genome Resequencing, De-novo assembly, SNP discovery, InDel discovery, ChIP-Seq, RNA-Seq and much more... | ||
| − | |bio method=Mapping, Assembly, Alignments | + | |bio method=Mapping, Assembly, and Alignments accelerated with SIMD implementation and multi-threading. |
| + | Package includes many more common-place bioinformatics tools such as BLAST and Clustal alignments as well. | ||
|bio tech=454, Illumina, ABI Solid, Helicos, Sanger, | |bio tech=454, Illumina, ABI Solid, Helicos, Sanger, | ||
|created by=Thomas Knudsen and Bjarne Knudsen et al | |created by=Thomas Knudsen and Bjarne Knudsen et al | ||
Revision as of 00:54, 14 January 2010
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Application data |
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| Created by | Thomas Knudsen and Bjarne Knudsen et al |
|---|---|
| Biological application domain(s) | Genomics, Whole Genome Resequencing, De-novo assembly, SNP discovery, InDel discovery, ChIP-Seq, RNA-Seq and much more... |
| Principal bioinformatics method(s) | Mapping, Assembly, and Alignments accelerated with SIMD implementation and multi-threading.
Package includes many more common-place bioinformatics tools such as BLAST and Clustal alignments as well.Property "Bioinformatics method" (as page type) with input value "and Alignments accelerated with SIMD implementation and multi-threading. Package includes many more common-place bioinformatics tools such as BLAST and Clustal alignments as well." contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process. |
| Technology | 454, Illumina, ABI Solid, Helicos, Sanger |
| Created at | http://www.clcbio.com |
| Maintained? | Yes |
| Input format(s) | FASTA, FASTQ, A reference genome sequence in fasta format, GenBank, SAM, Illumina Bustard, ELAND, CSFASTA/CSQUAL (ABI SOLiD), and many more. |
| Output format(s) | FASTA, FASTQ, GFF, GenBank, Nexus, and more |
| Software features | Advanced and user-friendly analyses of genomic, transcriptomic and epigenomic NGS data in a graphical user-interface |
| Programming language(s) | Java, C++ |
| Licence | Perpetual, temporal, Free trial license, floating network and terminal server |
| Operating system(s) | Windows, Mac OS X, Linux |
Summary: De novo and reference assembly of Sanger, 454, Solexa, Helicos, and SOLiD data. Support for paired and single reads. Alignment in base- and color-space, and mixed mode of any of the above including both short and long reads. Includes tools for SNP and small indel detection and annotation. Runs equally well on Windows, Mac OS X and Linux platforms, plus server/enterprise options for scalability of computation and storage.
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Link: http://www.clcbio.com/index.php?id=1240 Category: Integrated solutions
