Flexible analysis of high-content CRISPR screening
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Updated
Jun 3, 2024 - Python
Flexible analysis of high-content CRISPR screening
Analysis of CRISPR libraries
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 (`screening`).
List of software/websites/databases/other stuff for genome engineering
Visualization of CRISPR guide RNAs (gRNAs)
Basecalling, alignment, assembly and deconvolution of Sanger Chromatogram trace files
Synthego ICE - Inference of CRISPR Editing software
CCTyper: Automatic detection and subtyping of CRISPR-Cas operons
Shiny interface for CRISPR gRNAs designed with the crisprVerse
A workflow to analyse sequence mutations in CRISPR-CAS9 targeted amplicon sequencing data
Small RNA-Seq analysis for Yan J., Ravisankar P., Zhao A., Li H., Oyler-Castrillo P., Solley S., Chan M., Parsons L., Adamson B. (2023). An endogenous small RNA-binding protein safeguards prime editing. Manuscript submitted for publication.
CRISPR, faster, better – The Crackling method for whole-genome target detection
[This is an archived repository, see the current version in Arc Institute GitHub]
Fork of Azimuth (Machine Learning-Based Predictive Modelling of CRISPR/Cas9 guide efficiency), updated to work with Python 3.10+
Indigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products
Daniel Adediran
A cross-platform Graphical Analysis Tool for high-throughput CRISPR-based genome editing evaluation
CRISPRSeqSim is a tool that simulates results of CRISPR/cas editing fragments target sequencing.
Tutorials for the crisprVerse
Useful human and mouse data for the crisprVerse ecosystem
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