TODO.md

• Tutorials:

  • How to use a different PAM.
  • How was the dbSNP/ClinVar analysis for the paper ran.
  • How to filter the guides for specific 2-cuts filtering.
  • How to filter the guides to select cuts inside/outside the MH.
  • inDeplhi exploration: exact deletion vs size?

• Before submitting:

  • Add short paragraph about manuscript.
  • Transfer repo to Woltjen lab repo.
  • Update READMEs with new repo path.
  • Setup Dockerhub.
  • Register package on PyPi.

• Code

  • If using inDelphi, raise a warning if PAM sequence if not for SpCas9
  • Try to build Docker again. Does it take the submodule?

• Doc

  • inDelphi link and explanation.