Uploaded image for project: 'Jalview'
  1. Jalview
  2. JAL-1721

PCA: showing which amino acid positions contribute to clusters

    XMLWordPrintable

    Details

    • Type: New Feature
    • Status: Open
    • Priority: Major
    • Resolution: Unresolved
    • Affects Version/s: None
    • Fix Version/s: None
    • Component/s: None
    • Labels:
      None

      Description

      Many years ago, I was an avid user of Georg Casari's Sequence Space for PCA-based analysis of MSA. It is therefore nice that Jalview has incorporated this feature. In Casari's program, however, it was possible to identify which amino acid positions in the alignment that contribute to the PCA clusters. It had the option to select a cluster in the main window, which would then highlight the most contributing residues in a linked window.

      Is this a thought under consideration for Jalview?

      Best wishes
      Rein Aasland

        Attachments

          Issue Links

            Activity

              People

              Assignee:
              jprocter James Procter
              Reporter:
              aasland Rein Aasland
              Votes:
              0 Vote for this issue
              Watchers:
              2 Start watching this issue

                Dates

                Created:
                Updated: