| pickGO {AnnotationFuncs} | R Documentation |
Cleans up result from org.Xx.egGO and returns specific GO identifiers
pickGO(l, evidence=NA, category=NA)
l |
Character vector, or list of, og GO identifiers. |
evidence |
Character vector, filters on which kind of evidence to return; for a larger list see |
category |
Character vector, filters on which ontology to return: biological process (BP), cellular component (CC), or molecular function (MF). \*
Leave as |
Cleans up result from org.Xx.egGO and returns GO identifier for either
biological process (BP), cellular component (CC), or molecular function (MF).
Can be used on list of GOs from translate, or a single list of GOs from an annotation package.
May reduce list, if the (sub)list does not contain the chosen class!
List with only the picked elements.
Stefan McKinnon Edwards stefan.hoj-edwards@agrsci.dk
pickRefSeq, getEvidenceCodes, translate
library(org.Bt.eg.db)
genes <- c(280705, 280706, 100327208)
GO <- translate(genes, org.Bt.egGO)
# Get all biological processes:
pickGO(GO, category='BP')
# Get all ontologies with experimental evidence:
pickGO(GO, evidence=c('IMP','IGI','IPI','ISS','IDA','IEP','IEA'))