Stringtie prepDE.py script

Question

[Aiswarya]

Hello,

I am trying to generate gene count matrix and transcript count matrix using stringtie-prepDE.py script, I know that it expects input a certain way, I was wondering if it's possible to provide it a folder (let's call it ballgown for now) with a bunch of files with .gtf extension (can have different names though)

Thanks in advance

[Buffo]

from the manual:

-i a folder containing all sample sub-directories, or a text file with sample ID and path to its GTF file on each line, default='.'
-p a regular expression that selects the sample subdirectories, default= "."