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  1. Jalview
  2. JAL-3187

Option to show CDS/peptide 'complement' features

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      Description

      Proof of Concept to explore code and interface.
      Ambition: enable feature visualisation on CDS / protein / structure, as tailored (features, colours, filters) in the 'native' alignment of the feature.
      - add an option to 'Show CDS features' on peptide (and vice versa?)
      - locate and display 'complement' features on the fly via sequence mappings

        Attachments

        1. csdproteinfeaturesettingstabs.png
          114 kB
          James Procter
        2. JAL-3187.jvp
          2.44 MB
          Mungo Carstairs
        3. JmolTooltip.png
          51 kB
          Mungo Carstairs
        4. LinkedFeatures_1.png
          701 kB
          Mungo Carstairs
        5. LinkedFeatures_2.png
          595 kB
          Mungo Carstairs

          Issue Links

          blocks

          New Feature - A new feature of the product, which has yet to be developed. JAL-3304 Export linked features

          • Major - Major loss of function.
          • Closed

          Improvement - An improvement or enhancement to an existing feature or task. JAL-3535 View specific feature settings dialog title shows name of associated view

          • Major - Major loss of function.
          • Closed
          related with

          Bug - A problem which impairs or prevents the functions of the product. JAL-3534 Multiple feature settings dialogs can be opened for a view

          • Minor - Minor loss of function, or other problem where easy workaround is present.
          • Closed

          Improvement - An improvement or enhancement to an existing feature or task. JAL-3533 Remember positioning of Feature Settings dialog

          • Major - Major loss of function.
          • Closed

          Bug - A problem which impairs or prevents the functions of the product. JAL-3684 Cancel feature colour change in split frame doesn't update colour swatch

          • Trivial - Cosmetic problem like misspelt words or misaligned text.
          • Open

          Bug - A problem which impairs or prevents the functions of the product. JAL-3536 Can't show cross-refs twice for aligned transcripts + reference locus retrieved from Ensembl

          • Blocker - Blocks development and/or testing work, production could not run.
          • Closed

          Bug - A problem which impairs or prevents the functions of the product. JAL-3567 Genomic position shown in virtual feature tooltip

          • Major - Major loss of function.
          • Closed

          Bug - A problem which impairs or prevents the functions of the product. JAL-3613 Peptide-to-CDS tracking broken for EMBL gene products

          • Major - Major loss of function.
          • Closed

          New Feature - A new feature of the product, which has yet to be developed. JAL-3303 Informative tooltip on structure residue for Jalview feature(s)

          • Major - Major loss of function.
          • In Progress

          New Feature - A new feature of the product, which has yet to be developed. JAL-3302 Transfer 'virtual' features to Chimera

          • Major - Major loss of function.
          • Closed

          Improvement - An improvement or enhancement to an existing feature or task. JAL-3564 Allow 'virtual CDS/Protein' features to be overlaid without opening a CDS/Protein linked alignment

          • Major - Major loss of function.
          • Open

          Improvement - An improvement or enhancement to an existing feature or task. JAL-3251 Add biotype info to sequence mappings

          • Major - Major loss of function.
          • In Progress

          Improvement - An improvement or enhancement to an existing feature or task. JAL-2792 Provide tabular view of (one) sequence feature's details

          • Major - Major loss of function.
          • Closed

            Activity

              People

              Assignee:
              gmungoc Mungo Carstairs
              Reporter:
              gmungoc Mungo Carstairs
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                Dates

                Created:
                Updated:
                Resolved: