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StrobeMap v0.0.1

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@ksahlin ksahlin released this 27 Jul 05:49
· 96 commits to main since this release
0.0.1
8a10a8f

The first stable working version of StrobeMap (C++ implementation). Implements randstrobes and hybridstrobes of orders 2 and 3, and minstrobes of order 2. Uses bitpacking for fast construction time. Computes NAMs between a set of queries mapped to a set of references.

TODO:

  • Read fastq
  • Parallelize mapping
  • Separate creation and storage of reference index
  • Option to output the NAM-length on both the query and the reference (5 column format)
  • [Implement thinning?]
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