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  1. Jalview
  2. JAL-3165

Export T-Coffee scores and other alignment position score matrices

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    • Type: Improvement
    • Status: Open
    • Priority: Major
    • Resolution: Unresolved
    • Affects Version/s: None
    • Fix Version/s: None
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      Description

      Inspired [~rstuder]'s thread:
      http://www.jalview.org/pipermail/jalview-discuss/2018-November/001514.html

      Jalview supports visualisation of a number of dynamic positional calculations (ie colour schemes), in addition to visualisation of per-residue scores imported via T-Coffee score files or per-sequence annotation rows.

      Such alignment properties could be useful in downstream analyses, but can currently only be exported via groovy script (for conservation/blosum based scores - see thread), or annotation file. Ideally, we should also support (re)-generation of a T-Coffee score file and/or a standard labelled matrix format (or even just TSV) suitable for import to downstream data analysis tools.

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