Question: CIRCexplorer2: Exon count
0
gravatar for k.mamoud
2.7 years ago by
k.mamoud10
Switzerland
k.mamoud10 wrote:

Dear all

I am using CIRCexplorer2, to align and to find circRNA in mouse. I would like to do some differential expressiona analysis by using the exons that have been used to make my circRNA.

I would lkie to know which file I sould use to get the exons that have been used for each of my circRNA. And then where I can find the number of reads that are belonging to each of my exon, if it is possible?

Best regards

Mohamed

diffexp circrna count rnaseq • 1.1k views
ADD COMMENTlink modified 19 months ago by nedoluzhko0 • written 2.7 years ago by k.mamoud10
1

Hi,

When you will run CIRCexplorer2 it will give you a file name "circularRNA_known.txt" which will contain all information related to circular RNA and the read counts.

Column number "10" will give you information related to "Exon_count" and column number "13" will give you info related to read count of that particular exon.

Hoping it will help you.

ADD REPLYlink written 19 months ago by archana.bioinfo87180

I have the same question. Any ideas?

ADD REPLYlink written 19 months ago by nedoluzhko0
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