mrsFAST

mrsFAST: a cache-oblivious algorithm for short-read mapping. mrsFAST is designed to map short reads to reference genome assemblies; in a fast and memory-efficient manner. mrsFAST is a cache-oblivous short read mapper that optimizes cache usage to get higher performance. Currently Supported Features: Mismatches, no indels; Paired-end Mapping; Discordant Paired-end Mapping (to be used in conjunction with Variation Hunter); Best Mapping; Limited Mapping; SNP-aware Mapping; Multi-threading.

Keywords for this software

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