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  1. Jalview
  2. JAL-1364

account for gapped columns when mapping RNAalifold results to Jalview alignment

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    • Type: Task
    • Status: Resolved
    • Priority: Blocker
    • Resolution: Fixed
    • Affects Version/s: None
    • Fix Version/s: 2.8.1
    • Component/s: None
    • Labels:
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      Description

      It looks like when RNAalifold is given an alignment which includes columns where everything is a gap - e.g.:
      >a
      ACG--TU
      >b
      ACU--TG
      >c
      TCU-TTA

      RNAAliFold will return output that contains 6 columns, rather than 7, since it strips out the 4th column, where no residues are found.

      The attached file demonstrates this.

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              Assignee:
              jprocter Jim Procter
              Reporter:
              jprocter Jim Procter
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                Created:
                Updated:
                Resolved: