Error using dexseq_counts.py
I am trying to use dexseq_counts.py to find exon counts. I used ensemble gtf file for the dexseq_prepare_annotation.py in order to generate the gff file.
When I attempt to use dexseq_counts.py I gen the following error:
line 120 raise SystemError, "illegal strand" SyntaxError: invalid syntax
Does anyone have an idea how to solve it? The code I used was:
python3 path_to_python_scripts/python_scripts/dexseq_counts.py -r pos ensemble_dexseq_mouse.gff sample1.gff sample1.txt
• 661 views
•
link
written
by
felipead66
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
HTSeq-Count: no_feature too high?
written by sea.joson •
-
Tutorial: Methylation Analysis Tutorial in R - Part 1
written by Hamid Ghaedi
-
Structural variations (SV calling using Parliament2)
written by Nitha •
-
No aligned reads after featurecounts. BAM files have >85% reads mapped
written by LAB_2019 •
-
Human genome annotation
written by justinkablan225 •
-
How to repair a gff/gtf file that is missing gene id, gene name, and transcript name?
written by O.rka
-
error in prepare annotation script DEXseq
written by Lila M
-
htseq-count SAM Processing error "can't decode byte 0xa7"
written by Glubbdrubb •
-
htseq-count error utf-8 codec can't decode
written by alexadeanfitz •
-
Negative value in "phase" line of a gff3 file.What does it mean?
written by aramis.1994 •
