Generating Initial GAF file for Upload to Postgres

From WormBaseWiki
Revision as of 18:16, 4 November 2014 by Vanaukenk (talk | contribs)
Jump to navigationJump to search

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.