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  1. Jalview
  2. JAL-3623

Combined row-wise and positional per-sequence annotation shading

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      c.a. 2017 a prototype shading model for combining hit score and posterior probability was developed based on data vis 'transparency' shading - where instead of applying simple alpha blending, posterior probability was encoded as the amount of desaturatation applied to a colour encoding of the hit score for hmmsearch results.

      This 'hack' is perhaps generally useful, but a couple of things are needed:
      - extend the AnnotationColourGradient api to support enabling/disabling and IO of these colourscheme definitions via annotation files.
      - allow the colourschemes to be automatically applied when appropriate annotation data for sequences are available (e.g. detect posterior probability scores from hmm search results).
      - explore whether this model can be reused for other types of data
      - also explore if this model can be re-used for Consensus or Conservation shading.

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            Assignee:
            jprocter Jim Procter
            Reporter:
            jprocter Jim Procter
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