Really wish the bioinformatics part spent more time focusing on the workflow (like it does at 41:10) than it does on introducing the platform. There's so much to expand upon here. 1. What's bugging me a bit here though is that if the expected insert sizes are in the 10-700 range, wouldn't the read data necessarily include adapter content at the 3' ends for shorter insert lengths? Unless your demultiplexing is trimming the adapters by default, you'd probably still need to run these through a trimmer, right? 2. Given the high similarity of the reads (the no dedup required bit), can we use that duplication to polish the peaks for motif analysis?
![[WEBINAR] Spike-In Methods for ChIP-Seq, ATAC-Seq, CUT&RUN and CUT&Tag - Normalization Controls](http://i.ytimg.com/vi/IZXe3Ryn_UE/mqdefault.jpg)
![[WEBINAR] Spike-In Methods for ChIP-Seq, ATAC-Seq, CUT&RUN and CUT&Tag – Normalization Controls](/img/tr.png)
Really wish the bioinformatics part spent more time focusing on the workflow (like it does at 41:10) than it does on introducing the platform. There's so much to expand upon here.
1. What's bugging me a bit here though is that if the expected insert sizes are in the 10-700 range, wouldn't the read data necessarily include adapter content at the 3' ends for shorter insert lengths? Unless your demultiplexing is trimming the adapters by default, you'd probably still need to run these through a trimmer, right?
2. Given the high similarity of the reads (the no dedup required bit), can we use that duplication to polish the peaks for motif analysis?