AmiGO 2 Manual: Linking
Warning: This is a proposal and should not be treated like documentation.
AmiGO 2 now offers a stable set of URLs for linking. This page contains the supported methods for linking into AmiGO 2.
Users may also be interested in some of the more RESTy aspects of AmiGO 2 or the possibility of incorporating the widgets and interfaces used in AmiGO 2 into their own applications.
Terms
The supported format for linking to a GO term is:
http://amigo.geneontology.org/term/GO:XXXXXXX
For example:
http://amigo.geneontology.org/term/GO:0022008
This will resolve to an HTML page. Users may also manipulate the default search of the embedded search pane on a term details page by using the parameters described in the Searches section below.
Gene Products
The supported format for linking to a GO gene product is:
http://amigo.geneontology.org/gene_product/AAA:ZZZZZZZ
For example:
http://amigo.geneontology.org/gene_product/MGI:MGI:2177178
This will resolve to an HTML page. Users may also manipulate the default search of the embedded search pane on a gene product details page by using the parameters described in the Searches section below.
Searches
Base search pages
There are three base search pages. In order, they let you search for ontology terms, gene products and other bioentities, and annotations:
- http://amigo.geneontology.org/search/ontology
- http://amigo.geneontology.org/search/bioentity
- http://amigo.geneontology.org/search/annotation
Defining incoming searches
The initial search may be changed by using the following query string parameters
Query (q)
The string to search for. It should contain no GOlr secrets, wildcards, or any kind of metadata.
Removable filters (fq)
By defining this parameter, you can set an additional initial filter to the search.
Usable fields are any defined in the schema. A partial listing can be found here. This parameter may be defined multiple times.
Sticky filters/pins (sfq)
By defining this parameter, you can set an additional initial filter to the search that cannot be undone within the interface.
Usable fields are any defined in the schema. A partial listing can be found here. This parameter may be defined multiple times.
Other pages
While one can link to other pages in AmiGO 2, they are not formally considered resources and have no publicly defined variations or variables that can be passed through the URL.
- http://amigo.geneontology.org/landing
- http://amigo.geneontology.org/software_list
- http://amigo.geneontology.org/schema_details
- http://amigo.geneontology.org/load_details
- http://amigo.geneontology.org/medial_search
- http://amigo.geneontology.org/simple_search
These URLs may change at short notice.