A pipeline for the analysis of CRISPR edited data. It allows the evaluation of the quality of gene editing experiments using targeted next generation sequencing (NGS) data (
targeted) as well as the discovery of important genes from knock-out or activation CRISPR-Cas9 screens using CRISPR pooled DNA (
Define where the pipeline should find input data and save output data.
Alternative pipeline steps to include in the targeted analysis.
Parameters regarding umi molecular identifiers (UMIs)
Parameters used for alignment processes
Parameters to use in Vsearch processes
Parameters used for functional genomic screenings
Reference genome related files and options required for the workflow.
Parameters used to describe centralised config profiles. These should not be edited.
Set the top limit for requested resources for any single job.
Less common options for the pipeline, typically set in a config file.