search

jeffhussmann / knock-knock

toolkit for analyzing genome editing experiments
GNU General Public License v3.0
20 stars 10 forks source link

Custom categories and how knock-knock work in detail #13

Open hukai916 opened 1 year ago

hukai916 commented 1 year ago

Hi Jeff, I just started to use knock-knock again. Looks that many updates have been pushed over the past year, thanks for the work! Just a few conceptual questions, hope you can help.

  1. Can you explain how "simple indel", "complex indel", "blunt misintegration" categories are defined?
  2. Would it be possible/easy to add custom categories like "HDR plus vector integration" into the table?
  3. Can you explain how the knock-knock algorithm works in more detail? Better step-by-step, for example, at which steps will "STAR", "minimap2", and "blastn" be used, and for what purpose?

The above questions will help us better understand knock-knock when we use it to analyze our knock-in results. Thanks for your time!

Best,

--Kai