inst/unitTests/test_all.R

In metygl/ChIPXpress: ChIPXpress: enhanced transcription factor target gene identification from ChIP-seq and ChIP-chip data using publicly available gene expression profiles

test_all <- function()
{
    #GSM_ids <- c("GSM24056","GSM24058","GSM24060",
    #             "GSM94856","GSM94857","GSM94858")
    #t <- tempdir()
    #DB <- buildDatabase(GSMfiles=GSM_ids,SaveDir=t)
    #library(mouse4302.db)
    #EntrezID <- mget(as.character(rownames(DB)),mouse4302ENTREZID)
    #rownames(DB) <- as.character(EntrezID)
    #cleanDB <- cleanDatabase(DB,SaveFile="newDB_GPL1261.bigmemory",
    #                         SavePath=t)
    #data(Oct4ESC_ChIPgenes)
    #out <- ChIPXpress(TFID="18999",ChIP=Oct4ESC_ChIPgenes$EntrezID,DB=cleanDB)
    #checkEquals(class(out), "list")
    #checkEquals(length(out), 2)
    
}