List of software/websites/databases/other stuff for genome engineering
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Updated
Jun 20, 2024
List of software/websites/databases/other stuff for genome engineering
Software pipeline for the analysis of CRISPR-Cas9 genome editing outcomes from sequencing data
Synthego ICE - Inference of CRISPR Editing software
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`).
Basecalling, alignment, assembly and deconvolution of Sanger Chromatogram trace files
CCTyper: Automatic detection and subtyping of CRISPR-Cas operons
Analysis package for processing counts from genome-wide CRISPR/Cas9 screens
Data analysis scripts for Datlinger et. al, 2017 (doi:10.1038/nmeth.4177)
CRISPR, faster, better – The Crackling method for whole-genome target detection
Indigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products
ProTiler method for the analysis and visualization of CRISPR screens with tiling-sgRNA design
Flexible analysis of high-content CRISPR screening
Pre-processing of multiplexed CRISPR / shRNA Screens (deprecated)
A workflow to analyse sequence mutations in CRISPR-CAS9 targeted amplicon sequencing data
CRISPR/Cas-directed HDR genome editing suite: finds+scores gRNA targets, generates donor DNAs, & produces optimal cPCR primer designs.
A cross-platform Graphical Analysis Tool for high-throughput CRISPR-based genome editing evaluation
Identify and annotate mutations from genome editing assays.
Fork of Azimuth (Machine Learning-Based Predictive Modelling of CRISPR/Cas9 guide efficiency), updated to work with Python 3.10+
A program used to find indels on target gene edited by CRISPR/Cas9
Search guide-RNA sequences given a genome or gene sequence
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