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  1. Jalview
  2. JAL-674

display secondary structure of known structures on alignment

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      Description

      Request received via jalview-discuss:
      http://www.compbio.dundee.ac.uk/pipermail/jalview-discuss/2010-October/000457.html

      On 06/10/2010 12:15, Thomas Evangelidis wrote:
      > may I request to add an option that can display the secondary
      > structure elements (SSEs) of every sequence with known structure below
      > (or above) the alignment? In conjunction with secondary structure
      > prediction by Jpred, the user could adjust the alignment to eliminate
      > disruption of SSEs in the unknown sequences. With this feature Jalview
      > could become the ultimate commercial free alignment editor for
      > comparative modeling.

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          Story - Created by Jira Software - do not edit or delete. Issue type for a user story. JAL-1305 Allow distinct sets of annotation for a sequence to be propagated and visually compared

          • Major - Major loss of function.
          • Open
          depends on

          Bug - A problem which impairs or prevents the functions of the product. JAL-1142 fix up RNAML and PDB parsing to cope with nucleic acids as ligands

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

          New Feature - A new feature of the product, which has yet to be developed. JAL-1213 use Jmol data api to parse and process structure data

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

          Bug - A problem which impairs or prevents the functions of the product. JAL-623 pdb structure imported from paste to alignment not loaded into new Jmol window

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

          Bug - A problem which impairs or prevents the functions of the product. JAL-654 test JabaWS dialog needs fixing

          • Major - Major loss of function.
          • Open

          Story - Created by Jira Software - do not edit or delete. Issue type for a user story. JAL-1222 use jalview to visualise and analyse sequence associated annotation for any number of sequences

          • Major - Major loss of function.
          • Open

          New Feature - A new feature of the product, which has yet to be developed. JAL-1140 Support for parsing RNAML

          • Major - Major loss of function.
          • Closed

          Bug - A problem which impairs or prevents the functions of the product. JAL-706 BLC files from stamp not being parsed correctly

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

          Task - A task that needs to be done. JAL-1578 mechanism for binding data provenance to annotation rows

          • Major - Major loss of function.
          • Open

          Improvement - An improvement or enhancement to an existing feature or task. JAL-1264 show/hide all sequence associated annotation rows for all or current selection

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

          Improvement - An improvement or enhancement to an existing feature or task. JAL-1803 PDB chain id not saved in Jalview project

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

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              Assignee:
              jprocter James Procter
              Reporter:
              jprocter James Procter
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                Dates

                Created:
                Updated:
                Resolved: