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Short description:
Please summarise the application in a few sentences. Avoid links here. GSNAP can align both single-end and paired-end reads as short as 14 nt and of arbitrarily long length. It can detect short- and long-distance splicing, including interchromosomal splicing, in individual reads using probabilistic models or a database of known splice sites. Our program also permits SNP-tolerant alignment to a reference space of all possible combinations of major and minor alleles, and can align reads from bisulfite treated DNA for the study of methylation state.
Software version:
Biological application domain(s) (Phylogenetics, Genomics, ...):
RNA-Seq alignment, DNA methylation,
Principal bioinformatics method(s) (Assembly, Mapping, ...):
Read mapping, Bisulfite mapping,
Technology (Sanger, Illumina, 454, SOLiD, Ion Torrent, ...):
Interface (Command line, Web UI, Desktop GUI, SOAP WS, HTTP WS, API, QL):
Resource type (Command-line tool, Web application, Desktop application, Script, Suite, Workbench, Database portal, Workflow, Plug-in, Library, Web API, Web service, SPARQL endpoint):
Genentech
= Limitations = * Does not seem to support color space.
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