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Planteome / amigo

This repo is the Planteome fork of geneontology.org AmiGO2 project. Issues in this repo should be reported only on AmiGO issues. Issues can be pushed upstream if relevant for GO.
BSD 3-Clause "New" or "Revised" License
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Amigo browse tree #16

Open jaiswalp opened 8 years ago

jaiswalp commented 8 years ago

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 commented 8 years ago

I suggest:

phismith commented 7 years ago

-- 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 commented 7 years ago

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 commented 7 years ago

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

kltm commented 7 years ago

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 https://github.com/geneontology/amigo/issues/216.

cmungall commented 7 years ago

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