Difference between revisions of "Generating Initial GAF file for Upload to Postgres"
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*The idea here is to generate a non-redundant set of P2GO annotations to enter into postgres. Non-redundant means that these annotations do no overlap with any existing manual annotations. | *The idea here is to generate a non-redundant set of P2GO annotations to enter into postgres. Non-redundant means that these annotations do no overlap with any existing manual annotations. | ||
*Step 1: Grep all annotations in current WB GAF (from build) that have 'WBPhenotype' in Column 8: With/From | *Step 1: Grep all annotations in current WB GAF (from build) that have 'WBPhenotype' in Column 8: With/From | ||
| + | *Step 2: Using the annotations retrieved from Step 1, create a two-column table that contains the WBGene ID found in Column 2 and the PMID value found in Column 6. | ||
Revision as of 18:16, 4 November 2014
Initial Round of Entering Phenotype2GO-Based Annotations into Postgres
- The idea here is to generate a non-redundant set of P2GO annotations to enter into postgres. Non-redundant means that these annotations do no overlap with any existing manual annotations.
- Step 1: Grep all annotations in current WB GAF (from build) that have 'WBPhenotype' in Column 8: With/From
- Step 2: Using the annotations retrieved from Step 1, create a two-column table that contains the WBGene ID found in Column 2 and the PMID value found in Column 6.
