Experimental considerations

Model system
sgRNA library selection
sgRNA library transduction and representation
Sample comparisons
References

Installion of required software

Conda
Snakemake
Apptainer
Snakefetch
Obtaining workflow code

Workflow usage

Preparing analysis data directory
Experiment meta data
FASTQ trimming
BAGEL2 analysis
MAGeCK analysis
drugZ analysis
CRISPRcleanR
Setup global Snakemake profile
Dry-run on experimental data
Execution of workflow
Report of analysis

Protocols

Protocols
References

About

About crispr-screens
Citation

Source code

Reporting issues

crispr-screens

Index

Index

© Copyright 2024, Niek Wit.

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