Revision as of 20:03, 26 March 2009

Status

Currently beta.

See AmiGO 1 7 for information about the release after 1.6.

New Features

Community annotation

Term Information now contains a category for "Community". This reflects the current activity for the term on the GONUTS wiki. In addition, the GONUTS wiki now contains links back into AmiGO, so a user can easily move back and forth between the two. This allows real-time participation for the community.

Example: Round trip through GONUTS: test page

Detail: AmiGO checks whether the GONuts wiki has any information about this term using the GONUTS API.

Reference Genome Support

Several things have been added to AmiGO to support the addition of the Reference Genome information to the GO database.

Details

Each homolog set now has its own details page in AmiGO (for example). These details pages include information about

as well as the details of that evidence type.

and are sortable by several criteria.

Vizsualizations

- Vizualizations
  - Cachable
  - Interative SVG [1]
    - information from the details page
  - Static PNG [2]

Summary

There is also a

- Summary [3]
  - Cachable
  - evidence type groups

Links

In order for users to access the new information, already existed pages have had links to new homolset information added:

gene product search pages [4] (search for "pou5f")
gene product details pages [5]

Other

There has been the addition of an Other Tools button to the toolbar. This links to an overview page of the software available in AmiGO. It is sparsely populated at the moment, but as more tools are added to AmiGO, this will become a major hub.

A link in the footer has also been added that (indirectly) links to an experimental version of AmiGO in order to get early feedback on new features.

@@ Line 17: / Line 17: @@
 == Reference Genome Support ==
-Several new things have been added to AmiGO to support the addition of the Reference Genome information to the GO database.
+Several things have been added to AmiGO to support the addition of the Reference Genome information to the GO database.
+=== Details ===
+Each homolog set now has its own details page in AmiGO (for [http://ash.lbl.gov/cgi-bin/amigo/amigo?mode=homolset_annotation&set=307&order=default example]). These details pages include information about
+as well as the details of that evidence type.
+and are sortable by several criteria.
+=== Vizsualizations ===
-* Includes full support for Reference Genome displays
-** Links in from AmiGO
-*** gene product search page [http://ash.lbl.gov/cgi-bin/amigo/search.cgi] (search for "pou5f")
-*** gene product details page [http://ash.lbl.gov/cgi-bin/amigo/gp-details.cgi?gp=UniProtKB:Q01860]
-** Details [http://ash.lbl.gov/cgi-bin/amigo/amigo?mode=homolset_annotation&set=307&order=default]
-*** details of evidence type
-*** sortable
 ** Vizualizations
 *** Cachable
@@ Line 31: / Line 34: @@
 **** information from the details page
 *** Static PNG [http://ash.lbl.gov/cgi-bin/amigo/amigo?mode=homolset_graph&set=307&format=png]
+=== Summary ===
+There is also a
 ** Summary [http://ash.lbl.gov/cgi-bin/amigo/amigo?mode=homolset_summary]
 *** Cachable
 *** evidence type groups
+=== Links ===
+In order for users to access the new information, already existed pages have had links to new homolset information added:
+* gene product search pages [http://ash.lbl.gov/cgi-bin/amigo/search.cgi] (search for "pou5f")
+* gene product details pages [http://ash.lbl.gov/cgi-bin/amigo/gp-details.cgi?gp=UniProtKB:Q01860]
 == Other ==

AmiGO 1 6 (Archived): Difference between revisions