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  1. Jalview
  2. JAL-728

use different substitution matrices in the alignment quality calculation and shading

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      Description

      Blosum62 is not always the most appropriate substution matrix to use when evaluating alignment quality. It would be useful to be able to choose which substitution matrix (from a list or even provide your own) is used to calculate alignment quality.

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          New Feature - A new feature of the product, which has yet to be developed. JAL-2416 Load score matrices from file or resource file

          • Major - Major loss of function.
          • Closed

          Bug - A problem which impairs or prevents the functions of the product. JAL-2469 Verify the Quality calculation, its documentation, and provide Sum of Pairs Scores

          • Critical - Crashes, loss of data, severe memory leak.
          • In Progress

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              Assignee:
              jprocter James Procter
              Reporter:
              jprocter James Procter
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                Updated: