Bit-manipulation algorithms extract spaced k-mers at up to 750 MB/s per core, up to an order of magnitude faster than prior methods.
(2015) CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers.BMC genomics16(1):236
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Fast Iteration of Spaced k-mers
Bit-manipulation algorithms extract spaced k-mers at up to 750 MB/s per core, up to an order of magnitude faster than prior methods.