organism.df {ORFik} | R Documentation |
Uses the txdb / gtf organism information, if existing.
organism.df(df)
df |
an ORFik |
organism (character vector), if no organism set: NA
Other ORFik_experiment:
ORFik.template.experiment()
,
bamVarName()
,
create.experiment()
,
experiment-class
,
filepath()
,
libraryTypes()
,
outputLibs()
,
read.experiment()
,
save.experiment()
,
validateExperiments()
# if you have set organism in txdb of # ORFik experiment: df <- ORFik.template.experiment() #organism.df(df) #' If you have not set the organism you can do: #txdb <- GenomicFeatures::makeTxDbFromGFF("pat/to/gff_or_gff") #BiocGenerics::organism(txdb) <- "Homo sapiens" #saveDb(txdb, paste0("pat/to/gff_or_gff", ".db")) # then use this txdb in you ORFik experiment and load: # create.experiment(exper = "new_experiment", # txdb = paste0("pat/to/gff_or_gff", ".db")) ... # organism.df(read.experiment("new-experiment))