Hi, For my TCGA data set, I need to download gencode.v22.annotation.gtf.gz. For this purpose, I install “refGenome” package and run below codes in windows and Linux platforms in R:
setwd("E:/GTF") library (refGenome) # create ensemblGenome object for storing Ensembl genomic annotation data ens <- ensemblGenome() # read GTF file into ensemblGenome object read.gtf(ens, "gencode.v22.annotation.gtf")
When I want to read .gtf file in RStudio in windows my R crashed and I have to restart RStudio again. Also In Linux I receive this message:
The application R has closed unexpectedly. By clicking on “show detail” bottom, I see this message: R crashed with SIGABRT in __gnu_cxx::__verbose_terminate_handler
In addition, I downloaded gencode.v22.annotation.gtf.gz from 2 sources:
I appreciate if anybody share his/her comment with me.