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Right now we have 4 files for several species (human chicken cow pig dog), which was requested here #156 (with little explanation as to why we anted that).
annotations to canonical accessions from the UniProt reference proteome
annotations to isoforms from the UniProt reference proteome
annotations to complexes
annotations to RNAs
@alexsign will generate a single file for those species.
we will also need to update the GOA yaml file
Thanks, Pascale
The text was updated successfully, but these errors were encountered:
To clarify: this only applies to GAFs where there does not exist a MOD that assigns gene IDs.
For a MOD like dictyBase, even though the GAFs are currently managed at EBI-GOA, we just want a traditional GAF, the quad distinction (isoform, complex, etc) is only relevant when UniProt IDs are the primary IDs
This is the current dicty file which is what we want
!The set of protein accessions included in this file is based on UniProt reference proteomes, which provide one protein per gene.
!They include the protein sequences annotated in Swiss-Prot or the longest TrEMBL transcript if there is no Swiss-Prot record.
!In addition this file included Swiss-Prot Isoforms, RNA and ComplexPortal annotations data
This is all good, but it is important to precisely clarify requirements / spec in the issue
But my previous point still stands, for dicty we want gene IDs
cmungall
changed the title
GOA to generate since GAF & GPAD & GPI files for each species
EBI-GOA to generate since GAF & GPAD & GPI files for each species
Jul 26, 2023
Hello,
Right now we have 4 files for several species (human chicken cow pig dog), which was requested here #156 (with little explanation as to why we anted that).
@alexsign will generate a single file for those species.
we will also need to update the GOA yaml file
Thanks, Pascale
The text was updated successfully, but these errors were encountered: