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broadinstitute / longbow

Annotation and segmentation of MAS-seq data
https://broadinstitute.github.io/longbow/
BSD 3-Clause "New" or "Revised" License
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New segment cigars need to be refactored #177

Open jonn-smith opened 2 years ago

jonn-smith commented 2 years ago

The new cigars that are produced by the model for each segment need to be updated in 2 ways:

  1. The cigar operator and count are currently in the wrong order. The proper order is: <count><op>
  2. The cigar operators are the states in the HMM. They should be changed to reflect the real cigar operators, including = and X.

This will disproportionately effect inspect, but will also have ramifications in other tools.