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SpliceMap | Detection of splice junctions from paired-end RNA-seq data

Detects splice junctions from RNA-seq data. SpliceMap does not depend on any existing annotation of gene structures and is capable of finding novel splice junctions with high sensitivity and specificity. It can handle long reads and can exploit paired-read information to improve mapping accuracy. Workflow of standard SpliceMap and outline of junction search based on half-read mapping, it consists of four steps: half-read mapping, seeding selection, junction search and paired-end filtering.

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SpliceMap classification

SpliceMap specifications

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Department of Statistics, Stanford University, Stanford, CA, USA; Stanford Genome Technology Center, Palo Alto, CA, USA; Department of Internal Medicine and Department of Biomedical Engineering, University of Iowa, Iowa City, IA, USA

Funding source(s)

National Institutes of Health (1R01HG004634); Junior faculty grant from the Edward
Mallinckrodt Jr. Foundation

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