No exon_ID on results - Githubissues

MIAOKUI / PSI

PSI calculation script

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No exon_ID on results #1

Closed guillermomarco closed 6 years ago

guillermomarco commented 6 years ago

Hello, I've been using PSI script with both my own dataset and yours and I'm getting results without "exon_ID". Do you have any idea what could be causing that? Here's the command I'm using with the test dataset you provide.

psi_shell/PSI_v2.0 StartPSI test/output/genes.gtf 101 test/bam/E19_WT_1.bam test/junctions/E19_WT_1_tnnt2_junctions.bed E19_WT_1_test

I've attached the head of the PSI result output, E19_WT_1_test_exonic_parts_head.psi.gz

pabodha commented 6 years ago

Hi, You need to use an earlier version of bedtools to get the script to work. Bedtools 2.17.0 works for me. Pabodha

guillermomarco commented 6 years ago

Thank you!