Reference point for P2G links

[sylestiel]

The max dist between two peaks is 250,000 when calling P2G links. Is there any bearing on TSS as frame of reference?

Thanks!

[rcorces]

Is there any bearing on TSS as frame of reference?

I'm not sure I understand your question. can you clarify?

[sylestiel]

Is one of the peak within a defined distance from TSS of genes?

[rcorces]

peak to gene links are between a peak and a TSS. so yes

[sylestiel]

Is it 2Kb up and 100bp down (default value)?

[rcorces]

are you asking about peak2gene links or about coaccessibility?
for peak2gene links, its the distance from the peak to the single-base TSS of the gene.

[sylestiel]

The latter. Thank you!