GOLL2GO {GO} | R Documentation |
This is an R environment (hash table) mapping LocusLink ids to GO ids corresponding the genes represented by the LocusLink identifiers
LocusLink ids are keys and the corresponding GO ids are values. Values are named vectors of length 1 or greater depending on whether a given LocusLink id can be mapped to only one or more GO ids. Names for values are the evidence codes for the GO ids (if evidence code was provided by source data). The evidence codes in use include:
IMP - inferred from mutant phenotype
IGI - inferred from genetic interaction
IPI - inferred from physical interaction
ISS - inferred from sequence similarity
IDA - inferred from direct assay
IEP - inferred from expression pattern
IEA - inferred from electronic annotation
TAS - traceable author statement
NAS - non-traceable author statement
ND - no biological data available
IC - inferred by curator
NA is assigned to LocusLink id that can not be mapped to any GO id at this time.
Mappings were based on data provided by:
LocusLink built: March 3, 2004. ftp://ftp.ncbi.nih.gov/refseq/LocusLink/LL_tmpl.ga
Package built: Wed Mar 3 16:27:29 2004
http://www.ncbi.nlm.nih.gov/LocusLink
require("GO") || stop("GO unavailable") # Convert the environment object to a list xx <- as.list(GOLL2GO) # Remove LocusLink ids that are not mapped to any GO id xx <- xx[!is.na(xx)] if(length(xx) > 0){ # Get the GO ids for the first two elents of xx goids <- xx[1:2] # Get the evidence code goids evds <- sapply(goids, names) }