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  1. Jalview
  2. JAL-1934

optionally preserve '-' and '.' gap characters when importing alignments

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    Details

    • Type: New Feature
    • Status: Open
    • Priority: Critical
    • Resolution: Unresolved
    • Affects Version/s: None
    • Fix Version/s: 2.12.0
    • Component/s: None

      Description

      '-' and '.' are used in the results of HMM searches to represent two different types of gap.
      '-' refers to a deletion state in the hmm model.
      '.' refers to an insertion state in the hmm model.

      When importing the result of an HMM search, Jalview's normal behaviour of replacing . and - with the current gap character should be suppressed, and a user preference provided to prevent replacement when importing results from the local file system.

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              Assignee:
              jprocter Jim Procter
              Reporter:
              jprocter Jim Procter
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                Dates

                Created:
                Updated: