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  1. Jalview
  2. JAL-1455

Visual indicator of any minor(!) problems with data that may affect validity of PCA analysis

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    Details

    • Type: Improvement
    • Status: Open
    • Priority: Minor
    • Resolution: Unresolved
    • Affects Version/s: None
    • Fix Version/s: 3.0
    • Component/s: analysis, gui design issue
    • Labels:
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      Description

      In some cases, numerical algorithms can fail in difficult to detect ways. The results may still be meaningful, but due to the failure of certain assumptions, perhaps not 100% valid.

      This is the case with JAL-1454 - lack of convergence of the PCA results in a not-quite diagonal matrix, and thus an imperfect PCA embedding of the original sequence similarity matrix. If warnings are generated that indicate that the algorithm did not converge, then a visual indicator should be shown in the viewer to inform the user of that fact.

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            Assignee:
            jprocter James Procter
            Reporter:
            jprocter James Procter
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              Dates

              Created:
              Updated: