Difference between revisions of "Ontology Annotator - The GO annotation interface"

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Change requested: October 2010 <br>
 
Change requested: October 2010 <br>
 
Addition of new 'Accession Number' field to the GO interface: This field will be used to enter accession numbers from external databases.
 
Addition of new 'Accession Number' field to the GO interface: This field will be used to enter accession numbers from external databases.
*Name of field: Accession Number
+
*Name of field: Accession Number '''Added'''
*Position: Between 'EC' and 'With WBGene'
+
*Position: Between 'EC' and 'With WBGene'  '''Added'''
*Will be a multi-value drop-down (works similar to the 'Project field')
+
*Will be a multi-value drop-down (works similar to the 'Project field') '''Do you want a multidropdown, or a multiontology ?  I've made it a multidropdown, but it doesn't have all the functionality since we're not set on what it will be.  The Project field is a multiontology field, but we could also make that a multidropdown if you want.  The multiontology means that it autocompletes (nothing to click for dropdown list), and you can see Term Info about it ; also we need postgres tables for it which we can update with a cronjob.  A multidropdown lets you click the V button to see the possible values (instead of having to type) but you don't get to see Term Info ;  also the values are hardcoded in.  Let me know which you'd like, how often the values would change.'''
 
*Values are (Detailed explanations are here: http://www.geneontology.org/cgi-bin/references.cgi):
 
*Values are (Detailed explanations are here: http://www.geneontology.org/cgi-bin/references.cgi):
 
**GO_REF:0000011 Hidden Markov Models
 
**GO_REF:0000011 Hidden Markov Models
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**GO_REF:0000033 Annotation inferences using phylogenetic trees
 
**GO_REF:0000033 Annotation inferences using phylogenetic trees
 
**GO_REF:0000024 Curator sequence analysis for ISS
 
**GO_REF:0000024 Curator sequence analysis for ISS
 +
'''Added those 5 values, didn't add all values from the GO site.'''
 
**values can show in the drop-down as:
 
**values can show in the drop-down as:
'Hidden Markov Models (GO_REF:0000011)' if we want to conform to display of other values, eg, GO Term
+
'Hidden Markov Models (GO_REF:0000011)' if we want to conform to display of other values, eg, GO Term '''Done. but will change if we make it multiontology'''
  
 
As of now we don't need to work on modifying the dumping script, but would like to start recording this data during curation for storing in Postgres.  Will be dumping in the very near future.
 
As of now we don't need to work on modifying the dumping script, but would like to start recording this data during curation for storing in Postgres.  Will be dumping in the very near future.
 +
 +
'''Sounds good, but right now it's not recording the data in postgres, until we work out which of the two types we want.'''
 +
'''All changes are on the sandbox OA'''
  
 
Back to [[Gene Ontology]]
 
Back to [[Gene Ontology]]

Revision as of 23:01, 11 October 2010

Requests for interface change

Change requested: October 2010
Addition of new 'Accession Number' field to the GO interface: This field will be used to enter accession numbers from external databases.

  • Name of field: Accession Number Added
  • Position: Between 'EC' and 'With WBGene' Added
  • Will be a multi-value drop-down (works similar to the 'Project field') Do you want a multidropdown, or a multiontology ? I've made it a multidropdown, but it doesn't have all the functionality since we're not set on what it will be. The Project field is a multiontology field, but we could also make that a multidropdown if you want. The multiontology means that it autocompletes (nothing to click for dropdown list), and you can see Term Info about it ; also we need postgres tables for it which we can update with a cronjob. A multidropdown lets you click the V button to see the possible values (instead of having to type) but you don't get to see Term Info ; also the values are hardcoded in. Let me know which you'd like, how often the values would change.
  • Values are (Detailed explanations are here: http://www.geneontology.org/cgi-bin/references.cgi):
    • GO_REF:0000011 Hidden Markov Models
    • GO_REf:0000012 Pairwise alignment
    • GO_REF:0000015 Use of the ND evidence code for GO terms
    • GO_REF:0000033 Annotation inferences using phylogenetic trees
    • GO_REF:0000024 Curator sequence analysis for ISS

Added those 5 values, didn't add all values from the GO site.

    • values can show in the drop-down as:

'Hidden Markov Models (GO_REF:0000011)' if we want to conform to display of other values, eg, GO Term Done. but will change if we make it multiontology

As of now we don't need to work on modifying the dumping script, but would like to start recording this data during curation for storing in Postgres. Will be dumping in the very near future.

Sounds good, but right now it's not recording the data in postgres, until we work out which of the two types we want. All changes are on the sandbox OA

Back to Gene Ontology