Raw counts using stringtie

Question

[ahmad.sajad4541]

I am trying to find raw counts for differential gene expression analysis using stringtie but it is getting me error as below. i have used featurecounts software for the same data and genome annotation file and the results are fine. since i need fpkm or rpkm values for normalization so featurecounts is not giving that output. please suggest me what to do.

Stringtie error:

[Ram]

What is stringie.sh? Try ./stringtie.sh -h and then more stringtie.sh.

[GenoMax]

Error parsing strand from GFF line

Looking at this error and the listing of files in your directory it looks like you need to gunzip the GTF file. Binary characters you show above are likely from the program trying to read a gzip compressed file.