Entering edit mode
16 months ago
Chris
▴
340
Hi all, I want to compare the peaks to see which condition has more chromatin open and I got advice that I should adjust all the range to the highest value. When I set the min to 2.3, I got this. Is that the correct thing I should do in this case? Thank you so much.
No, this doesn't make sense to me. For example your diseased Rep1 peak disappears, but it's clear there is a peak. So, this would be misleading to show it to anybody.
Maybe if you want to easily see peaks that pass a threshold, this could be okay to find the peaks, but be sure to use the full scale when presenting.
I usually just group autoscale all related tracks (or at least set the Max value to the same value) and then find peaks that are noticeable different enough.
It was autoscale as default and the value of each bigwig file still different. Or I don't have to change anything? Thank you.
Underneath the check mark for Autoscale, there is a Group autoscale. That will group scale whichever tracks are currently selected.
Thank you so much! All tracks value after group autoscale now is 2.3. Could I say the disease is more open in this case?
I might buy that if explained properly. If you zoom in on each region, you may be able to show the difference better.
Zoom into 63kb, I got something like this. I am not sure how much I should zoom in.
Probably depends on what point you want to make, but I think it looks nice.