GCV: Include white genes in legend about gcv

[alancleary]

Commit 3576585 added entries to the micro-synteny legend for "Singletons" and "Orphans". Now the question is, @adf-ncgr , do we remove the links to view the phylotree for the selected family in the left slider since one of these represents no gene family and the other represents several?!

[adf-ncgr]

not sure I completely understand your question- a "singleton" is only a singleton with respect to the current view, but the gene family it belongs to should be much like any other gene family, so no
reason that I can see to alter their behavior. "Orphans" on the other hand I agree should not have a phylotree link since there is nothing to link to in that case.

[alancleary]

I'm referring to the slider that appears when you click on a gene family in the micro-synteny legend. Until now, each key in the legend has represented a single gene family, so we hard coded a "View genes in phylogram" link into the slider. Now that we've added keys for orphan and singleton genes, the link can't handle these scenarios. In the case of the orphans, I think supressing the link will suffice. The question is, in the case of the singleton genes, which all belong to different gene families, do we want to simply suppress the link or do something else, such as giving each gene its own link?

[adf-ncgr]

Oh, I get it now; there is a single legend entry representing multiple gene families so the difficulty is to know which one could be meant on click. I think I agree it makes sense to suppress linking in this case too- users can click on individual genes to get links to their families. AlthoughI suppose one might make some argument that it could be of interest to see listed all of the singleton families present, if one was interested in exploring things that are unique and possibly functionally differentiating. This might become even more interesting when we add in the metadata-based capabilities to include functional descriptors of the families. I guess we will talk in <10 minutes so can weigh the pros/cons and try to come to a decision then.

[alancleary]

Commit f7bf09d add "Singletons" and "Orphans" to the basic micro-synteny legend. Commit 0fd45ae suppressed the "View genes in phylogram" link when either of these keys is selected.