Difference between revisions of "CLCbio Genomics Workbench"
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|sw summary=De novo and reference assembly SNP and small indel detection and annotation. | |sw summary=De novo and reference assembly SNP and small indel detection and annotation. | ||
|bio domain=Genomics, Whole Genome Resequencing, De-novo assembly, SNP discovery, InDel discovery, ChIP-Seq, RNA-Seq | |bio domain=Genomics, Whole Genome Resequencing, De-novo assembly, SNP discovery, InDel discovery, ChIP-Seq, RNA-Seq | ||
| − | |bio method=Mapping, Assembly, Alignments, Paired end, Colorspace, | + | |bio method=Mapping, Assembly, Alignments, Paired end, Colorspace, |
| − | |bio tech=454, Illumina, ABI | + | |bio tech=454, Illumina, ABI SOLID, Helicos, Sanger, |
|created by=Knudsen T, Knudsen B | |created by=Knudsen T, Knudsen B | ||
|created at=http://www.clcbio.com | |created at=http://www.clcbio.com | ||
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|input format=FASTA, FASTQ, GenBank, SAM, Illumina Bustard, ELAND, CSFASTA/CSQUAL (ABI SOLiD) | |input format=FASTA, FASTQ, GenBank, SAM, Illumina Bustard, ELAND, CSFASTA/CSQUAL (ABI SOLiD) | ||
|output format=FASTA, FASTQ, GFF, GenBank, SAM, ACE, Nexus | |output format=FASTA, FASTQ, GFF, GenBank, SAM, ACE, Nexus | ||
| − | |sw feature=Advanced and user-friendly analyses of genomic, transcriptomic, and epigenomic NGS data in a graphical user-interface. Wizard driven tools and a freely available developer toolkit, SIMD implementation, multi-threading, hybrid assembly, Integrated solution, | + | |sw feature=Advanced and user-friendly analyses of genomic, transcriptomic, and epigenomic NGS data in a graphical user-interface. Wizard driven tools and a freely available developer toolkit, SIMD implementation, multi-threading, hybrid assembly, Integrated solution, |
|language=Java, C++ | |language=Java, C++ | ||
|licence=Perpetual, temporal, floating network and terminal server licenses available. Free, limited time trial and evaluation licenses. | |licence=Perpetual, temporal, floating network and terminal server licenses available. Free, limited time trial and evaluation licenses. | ||
Revision as of 20:40, 28 April 2010
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Application data |
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| Created by | Knudsen T, Knudsen B |
|---|---|
| Biological application domain(s) | Genomics, Whole Genome Resequencing, De-novo assembly, SNP discovery, InDel discovery, ChIP-Seq, RNA-Seq |
| Principal bioinformatics method(s) | Mapping, Assembly, Alignments, Paired end, Colorspace |
| Technology | 454, Illumina, ABI SOLID, Helicos, Sanger |
| Created at | http://www.clcbio.com |
| Maintained? | Yes |
| Input format(s) | FASTA, FASTQ, GenBank, SAM, Illumina Bustard, ELAND, CSFASTA/CSQUAL (ABI SOLiD) |
| Output format(s) | FASTA, FASTQ, GFF, GenBank, SAM, ACE, Nexus |
| Software features | Advanced and user-friendly analyses of genomic, transcriptomic, and epigenomic NGS data in a graphical user-interface. Wizard driven tools and a freely available developer toolkit, SIMD implementation, multi-threading, hybrid assembly, Integrated solution |
| Programming language(s) | Java, C++ |
| Licence | Perpetual, temporal, floating network and terminal server licenses available. Free, limited time trial and evaluation licenses. |
| Operating system(s) | Windows, Mac OS X, Linux |
Summary: De novo and reference assembly SNP and small indel detection and annotation.
"Error: no local variable "counter" was set." is not a number.
Link: http://www.clcbio.com/index.php?id=1240
Server/enterprise options for scalability of computation and storage.
Package includes many more common-place bioinformatics tools such as BLAST and Clustal alignments as well.
