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Short description:
Please summarise the application in a few sentences. Avoid links here. Sequence error correction for RNA-Seq data
Software version:
Biological application domain(s) (Phylogenetics, Genomics, ...):
RNA-Seq quantification
Principal bioinformatics method(s) (Assembly, Mapping, ...):
Sequence error correction,
Technology (Sanger, Illumina, 454, SOLiD, Ion Torrent, ...):
Illumina, 454, Ion Torrent, PacBio,
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):
Carnegie Mellon University
SEECER is an error correction method that removes errors that are introduced during sequencing. Mismatches, insertion or deletions are removed by creating multiple alignments of reads and building HMMs that are used to decide which reads are be corrected. In the provided reference it is shown that error correction with SEECER improves the downstream analysis, especially RNA de novo assembly.
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