Hi there,
One more issue: Looking at the MultiQC report, the HOMER: Peak annotation plot, Counts tab, the plot seems to be on the wrong x-axis scale. The scale seems to be that of the Percentages tab (0-100), is it?
The reason why I think something might be wrong is that for the Percentages tab, we get peaks assigned to all genomic features; not for the Counts tab.
Let me know what you think.
Thank you in advance!
Best wishes
Katrin