I am having trouble finding how to normalize coverage tracks. First, what exactly are you normalizing - Tn5 insertions, or whole fragments? Or the 9bp binding site of Tn5? Are genomic regions divided into bins and fragments/Tn5 insertions counted in each bin?
Second, how are these counts normalized? Are they divided by the mean of a predefined window size in the surrounding region? Is it as simple as CPM?
I ask because I would like to create my own
Best
Dan
RetroSearch is an open source project built by @garambo | Open a GitHub Issue
Search and Browse the WWW like it's 1997 | Search results from DuckDuckGo
HTML:
3.2
| Encoding:
UTF-8
| Version:
0.7.4