AlleleAnalyzer is a tool for designing personalized and allele-specific sgRNAs for general genome editing and optimizing pairs of sgRNAs for human therapeutic editing. This tool was formerly named ExcisionFinder, but ExcisionFinder is now a component of the larger AlleleAnalyzer tool.

Note: If you use this tool and find any issues or anything that is difficult to interpret, please send a message to this Github or to kathleen.keough at gladstone.ucsf.edu

If you use this tool, please cite our preprint.

1. Getting started

• How it works
• Install ExcisionFinder and its requirements

2. Tool descriptions

• Design allele-specific sgRNAs
• Using CRISPOR with ExcisionFinder

3. Tutorials

• Tutorial: Design sgRNAs for allele specific excision of the gene MFN2 in the WTC genome

The annotated variant database and gene targetability results from the 1000 Genomes Project are available here.

Pre-computed PAM locations.

UCSC chromosome fastas, hg19.

UCSC chromosome fastas, hg38.