Entering edit mode
7.1 years ago
dina.hesham139
▴
170
Hey, I'm using deseq2 after kallisto to analyze rice data. I'm using an ensembl gtf and I want to create a txdb. I used this one:
txdb2 <- makeTxDbFromGFF(file="C:/Users/Dee/Desktop/Thesis_rice/Oryza_sativa.IRGSP-1.0.37.gtf", format=("gtf"), dataSource=paste("ftp://ftp.ensemblgenomes.org/pub/plants/release-37/gtf/oryza_sativa/",sep=""), organism="Oryza sativa")
and I got that error:
Import genomic features from the file as a GRanges object ... OK
Prepare the 'metadata' data frame ... OK
Make the TxDb object ... Error in c(x, value) :
could not find symbol "recursive" in environment of the generic function
I can't figure out what's wrong, any help?
See this thread for a solution.
I re-installed all the packages and the error is not yet resolved!