Closed mcsimenc closed 3 years ago
Hi Matt,
You are completely right - this was a bug. There was an error in how the assignment of downstream/upstream was set in comparison to the feature anchor. We just released a fix in uropa 3.5.3
, where the strand is taken into account. Sorry for the inconvenience!
Best Mette
Hi Mette, thank you for the speedy response! I'll upgrade my UROPA installation.
Thanks for developing UROPA!
When I look at genes where the associated peak is marked "Downstream" in my UROPA output in a genome browser, I see that the peaks are upstream of the genes, which are on the - strand. Could this be a bug where strand is not taken into account? In the docs it says upstream/downstream is relative to strand, but my output does not reflect that.
Best,
Matt