Amigo browse tree

[jaiswalp]

http://dev.planteome.org/amigo/dd_browse

May I suggest limiting the tree to IS-A only or have a selection of relationship_types to choose either configured by the admin or options available to users to select.

In a simple way I suggest starting only with IS-A and build on top of that.
@cmungall @elserj @kltm @cooperl09

[cmungall]

I suggest:

• isa/subclass
• part-of
• occurs-in
• regulates (only visible when browsing GO)

[phismith]

-- when I browse PO I get things like this

http://browser.planteome.org/amigo/term/PO:0009011#display-lineage-tab

Is there any way I can see just the PO plant anatomical structures?

Also how do I get an indication what the edges in graphs like this mean:

http://browser.planteome.org/visualize?inline=false&term_data=PO%3A0006334&format=svg&mode=amigo&term_data_type=string

(earlier we had labels, 'P' etc.)

[cmungall]

It can be useful to traverse to a trait from the relevant structure; maybe we could make this configurable? What do others think?

Edge labels are a good idea, not sure why we do't have them

[cmungall]

(edited comment, which was meant for a different tracker, totally unrelated)

[kltm]

As a note, the graphviz version on the backend makes the edge labels look horrible, and the library is difficult to work with, so they were removed some time ago. Last work there was geneontology#216.

[cmungall]

I know the kids use D3 now but I have found GraphViz to be simple, expressive and powerful.

should be easy to slot this in
https://github.com/cmungall/obographviz