Description Usage Arguments Details Value Note Author(s) References Examples
Maps UniProt accession ids to the (multiple) GO terms they are associated
with, and adds the map to the msarc
object. Any given accession
will most likely be associated with multiple GO terms.
1 2 | msarc.findGOterms(msarc,eg2uniprot=org.Hs.eg.db::org.Hs.egUNIPROT,
eg2go=org.Hs.eg.db::org.Hs.egGO,minCount=10)
|
msarc |
the |
eg2uniprot |
an |
eg2go |
an |
minCount |
GO categories with fewer than |
The eg2uniprot
and eg2go
tables can be found in the
annotation packages for various species. For example, the human and mouse
packages are
org.Hs.eg.db
and org.Mm.eg.db
, respectively.
This function is a bit slow.
the modified msarc
object.
It is normal if a few UniProt accessions cannot be mapped to Entrez IDs, or from there to GO terms. The unmapped accessions will be listed after the mapping is complete, with the message "missing UniProt IDs: ...".
Gord Brown
The Gene Ontology Consortium, "Gene Ontology: tool for the unification of biology". Nature Genetics 25:25-29 (2000)
1 2 3 4 5 | # Load a data set from a mass spec experiment
data(sample_subtracted,package="msarc")
# run the mapping stage
## Not run: sample_go <- msarc.findGOterms(sample_subtracted)
|
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