I have a question about the analysis of RNA-seq data. The only file that i have for my analysis is a GTF file. I want to identify differentially expressed en regulated genes. With galaxy I can run the cuffcompare tool which produces 4 output files, named:
- refmap (is empty)
- transcript accuracy
My question is, How can i identify differentially expressed genes, based on these output files and the GTF file.
Here is an overview of the GTF file:
Thank you! Lisanne