MapSplice is an algorithm for mapping RNA-seq data to reference genome for splice junction discovery.
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generalization to both short-reads and long reads.
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both CPU and memory efficient.
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discovery of both canonical, semi-canonical and non-canonical junctions.
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splice inference based on the alignment quality and diversity of reads mapped to a junction.
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identification of chimeric events (intra-chromosomes and inter-chromosomes, inter-strands) with long reads
For more information, please see http://www.netlab.uky.edu/p/bioinfo/MapSplice