Difference between revisions of "Skewer"
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{{Bioinformatics application | {{Bioinformatics application | ||
|sw summary=Skewer implements a novel dynamic programming algorithm dedicated to the task of adapter trimming and it is specially designed for processing illumina paired-end sequences. | |sw summary=Skewer implements a novel dynamic programming algorithm dedicated to the task of adapter trimming and it is specially designed for processing illumina paired-end sequences. | ||
| − | |bio domain=Small RNA, | + | |bio domain=Small RNA Sequencing, RNA-Seq, Sequence assembly |
| − | |bio method= | + | |bio method=Read pre-processing, Adapter removal, Sequence trimming, Read mapping, |
| − | |bio tech=Illumina, Illumina HiSeq, Illumina Solexa, | + | |bio tech=Illumina, Illumina HiSeq, Illumina Solexa, |
| + | |created by=Hongshan Jiang | ||
| + | |created at=University of California Riverside, CA 92521, USA | ||
| + | |maintained=Yes | ||
| + | |email address=hongshan.jiang@ucr.edu | ||
| + | |input format=(Compressed) FASTQ, (Compressed) FASTA, | ||
| + | |output format=Fasta/q, Fasta.gz, fastq.gz | ||
| + | |sw feature=multi-threading, | ||
| + | |language=C++, | ||
| + | |os=Linux 64, | ||
}} | }} | ||
== Description == | == Description == | ||
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<!-- --> | <!-- --> | ||
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| + | http://www.biomedcentral.com/1471-2105/15/182 | ||
{{Links}} | {{Links}} | ||
{{References}} | {{References}} | ||
{{Link box}} | {{Link box}} | ||
Latest revision as of 18:23, 2 December 2015
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Application data |
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| Created by | Hongshan Jiang |
|---|---|
| Biological application domain(s) | Small RNA Sequencing, RNA-Seq, Sequence assembly |
| Principal bioinformatics method(s) | Read pre-processing, Adapter removal, Sequence trimming, Read mapping |
| Technology | Illumina, Illumina HiSeq, Illumina Solexa |
| Created at | University of California Riverside, CA 92521, USA |
| Maintained? | Yes |
| Input format(s) | (Compressed) FASTQ, (Compressed) FASTA |
| Output format(s) | Fasta/q, Fasta.gz, fastq.gz |
| Software features | multi-threading |
| Programming language(s) | C++ |
| Operating system(s) | Linux 64 |
| Contact: | hongshan.jiang@ucr.edu |
Summary: Skewer implements a novel dynamic programming algorithm dedicated to the task of adapter trimming and it is specially designed for processing illumina paired-end sequences.
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Description
http://www.biomedcentral.com/1471-2105/15/182
Links
References
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