WBConfCall 2017-10-05-Agenda and Minutes

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Agenda

outstanding help desk items

These are all new--thanks everybody for staying on top of these.

  • None!

Adding links to AGR gene and disease pages

  • It has been requested that, for the October 20th AGR 1.0 release, we have prominent links to AGR gene pages from MOD gene pages and prominent links to AGR disease pages from MOD disease pages
  • To be determined:
    • Where exactly should the link go? In the Overview widget? External Links widget (although may not be prominent enough)?
    • Should the link be represented by the AGR logo? The entire phrase "Alliance of Genome Resources"? Just "Alliance" or "AGR"?
    • We can have a tooltip/pop-up when hovering the cursor over the link to spell out "Alliance of Genome Resources"
  • Have created GitHub tickets:

Splicing frequency diagrams

  • Denis Dupuy presented work at the IWM about depicting gene splicing frequencies derived from RNA-Seq data on a log-scale
  • These depictions are often useful for deciding which splice variant(s) is/are the most prevalent, especially for genes with many splice variants
  • His paper has been submitted and is expected to be accepted soon
  • He has sent us images (in PDF) for each gene in C. elegans
  • Gary W. has started working out a similar display for all species
  • Do we want to display these images on gene pages?
  • Some examples:
    • daf-16 on WB GBrowse:

Daf-16 locus GBrowse.png

    • daf-16 splicing frequencies from Denis:

Daf-16 DD splcing frequencies.png

    • hlh-30 on WB GBrowse:

Hlh-30 locus GBrowse.png

    • hlh-30 splicing frequencies from Denis:

Hlh-30 DD splcing frequencies.png

JBrowse posibilities

It is certainly possible to do graph type things in JBrowse. See this example GWAS viewer plugin: Gwasplotter.png

Minutes