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supportedGeneIDs=function(){
base=unfactor(GenomicFeatures:::supportedUCSCtables())
#Current version
txname2gene_mapinfo=GenomicFeatures:::.UCSC_TXNAME2GENEID_MAPDEFS
base$GeneID=""
#Old version
#tmp=unlist(lapply(txname2gene_mapinfo[base$db],function(u){u[[2]]}))
#base$GeneID[match(names(tmp),base$db)]=as.character(tmp)
#NEW Ant 28/09/16
tmp=unlist(lapply(txname2gene_mapinfo[base$tablename],function(u){u[[2]]}))
base$GeneID[match(names(tmp),base$tablename)]=as.character(tmp)
#Add in gene symbol
base[nrow(base)+1,]=c("geneSymbol",'refGene','refFlat',"Gene Symbol")
base$AvailableGenomes=""
repo=grep(".*\\..*\\.LENGTH",as.data.frame(data(package="geneLenDataBase")$results,stringsAsFactors=FALSE)$Item,ignore.case=TRUE,value=TRUE)
repo=matrix(unlist(strsplit(repo,"\\.")),ncol=3,byrow=TRUE)
valid_genomes=sapply(split(repo[,1],repo[,2]),paste,collapse=",")
valid_genomes=valid_genomes[which(names(valid_genomes)%in%base$tablename)]
base$AvailableGenomes[match(names(valid_genomes),base$tablename)]=as.character(valid_genomes)
avail = base[base$tablename == "knownGene" | base$tablename == "vegaGene" | base$tablename == "geneSymbol" | base$tablename == "ensGene",]
avail
}
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