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Accurate calling of structural variations such as deletions with short sequence reads from high-throughput sequencing is an important but challenging problem in the field of genome analysis. There are many existing methods for calling deletions. At present, not a single method clearly outperforms all other methods in precision and sensitivity. A popular strategy used by several authors is combining...
Because of the complicity of RNA splicing, discovering splicing junctions and aligning RNA-Seq reads with high sensitivity and specificity is still a challenging problem. In this paper, we propose an SVM-based approach for discovering splicing junctions with RNA-Seq data. The key idea of our approach is combining multiple sources of information contained in sequence data in discovering exon-intron...
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