duplicate reads in the count matrix with difference expression value?

[mathavanpu]

Hi,
I have done the circular RNA prediction, the files CircCoordinates,CircRNACount,CircSkipJunctions and LinearCount generated.
The CircRNACount file has duplicate rowname with different expression values.
Can you please guide me on this

[gnilihzeux]

Hi, @mathavanpu Has the problem been solved? I‘m very concerned about this as DCC is the main part in my analysis workflow.

[CDieterich]

Hi @gnilihzeux and @mathavanpu

what kind of sequencing library do you use and does the backsplicing junction fall into a known exons ?

[gnilihzeux]

Generally rRNA-deleted library or rRNA-deleted & RNase R.
Actually, I doubt these duplicates represent circRNAs in positive and negative strands seperatly.

[tjakobi]

Dear @gnilihzeux,

Thank you for reporting back. I thought this issues was solved, I will check my commits.

Did you observe similar cases in your data analysis? If so, which DCC version are you using?

Thank you,

Tobias