How to obtain independent introns bed file from gtf

Question

[archanaverma433]

I have installed gtftools from conda. I have been using gtftools to get independent introns bed file from ensembl S pombe gtf using the following command

gtftools -d independent_introns.bed Schizosaccharomyces_pombe.ASM294v2.51.gtf

But bed file is empty and it is also not giving any error.

Please help me with this.

Thank you

Answer 1

[ATpoint]

You don't need specialized tools other than awk and bedtools. See Get intronic and intergenic sequences based on gff file