Question regarding custom gtf file for SUPPA
Hi,
I wanted to create a MiniSOX9 truncated version of SOX9 isoform. Therefore, I am trying to create a custom gtf file to generate events using SUPPA. But my isoform "MiniSOX9" is not showing up in the .ioe output file. Initially, for this analysis I didn't find SOX9 after doing SUPPA. I would appreciate if you could let me know what I am doing wrong or why it is not generating this specific isoform. I am using the hg19 gtf file. Below is the screenshot of my gtf file.MiniSOX9 is inside the orange box.
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Novel Junctions from SJ.out.tab
written by SpliceAndScript •
-
Uploading HiC track on UCSC browser
written by arsala521 •
-
featureCounts with exon_id has counts backwards for reversely stranded genes
written by ksh4718 •
-
GTF based salmon index file for GRCh38
written by parvathi.sudha •
-
HOMER load genomes not working
written by c78483 •
-
De Novo Assembly - GTF/GFF File
written by arussell3483 •
-
feature count at gene and transcript level
written by Prakash
-
How to Debug Multigeneblast Running Error
written by dpktiwari168 •
-
STAR for Genome Index and Alignment
written by umeshtanwar2 •
-
Pathvisio fails to open .xml files.
written by lech.kaczmarczyk •
Please see How to add images to a Biostars post to add your images properly. You need the direct link to the image, not the link to the webpage that has the image embedded (which is what you have used here)
Hello NJE!
Questions similar to yours can already be found at:
We have closed your question to allow us to keep similar content in the same thread.
If you disagree with this please tell us why in a reply below. We'll be happy to talk about it.
Cheers!