Difference between revisions of "CLCbio Genomics Workbench"
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{{Bioinformatics application | {{Bioinformatics application | ||
− | |sw summary=De novo and reference assembly | + | |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, | + | |bio method=Mapping, Assembly, Alignments, Paired end, Colorspace, |
− | |||
|bio tech=454, Illumina, ABI Solid, Helicos, Sanger, | |bio tech=454, Illumina, ABI Solid, Helicos, Sanger, | ||
− | |created by= | + | |created by=Knudsen T, Knudsen B |
|created at=http://www.clcbio.com | |created at=http://www.clcbio.com | ||
|maintained=Yes | |maintained=Yes | ||
− | |input format=FASTA, FASTQ | + | |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 | + | |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. | ||
− | |os=Windows, Mac OS X, Linux | + | |os=Windows, Mac OS X, Linux |
}} | }} | ||
− | Link: http://www.clcbio.com/index.php?id=1240 | + | 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. |
Revision as of 13:12, 18 January 2010
Application data |
|
Created by | Knudsen T, Knudsen B |
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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.