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README.md

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Tutorials for the crisprVerse

Getting started

  1. Installation
  2. Building a genome index for off-target alignment
  3. Specifying a custom nuclease
  4. Building a gene annotation object

Common gRNA design workflows

  1. CRISPR knockout (CRISPRko) design with Cas9
  2. CRISPR knockout (CRISPRko) design with Cas12a
  3. CRISPR knockdown (CRISPRkd) design with Cas13d
  4. CRISPR knockdown (CRISPRkd) design with the Csm complex
  5. CRISPR base editing (CRISPRbe) design with BE4max
  6. CRISPR activation (CRISPRa) design
  7. CRISPR interference (CRISPRi) design

Less common gRNA design workflows

  1. Paired gRNA design
  2. Working with custom DNA sequences
  3. Design for optical pooled screening (OPS)

Miscellaneous

  1. Mapping gRNAs across species
  2. Working with minor and major alleles
  3. Validating existing gRNA libraries
  4. Building a gRNA database across all protein-coding genes