Crispr Python Packages

spacr

spaCR Spatial phenotype analysis of CRISPR–Cas9 screens (spaCR)

mgsurve

Python package to optimize mosquito traps' positioning in field trials.

monet-mgdrive

Contains the code for the pypi package to do the data analysis portion of the MGDrivE project.

diced

A Rust reimplementation of the MinCED method for identifying CRISPRs in full or assembled genomes.

screenpro2

Flexible analysis of high-content CRISPR screening

genet

GenET: Genome Editing Toolkit

spacr-nightly

Spatial phenotype analysis of crisp screens (SpaCr)

cy

Python module to analyse CRISPR-based libraries

cctyper

CRISPRCasTyper: Automatic detection and subtyping of CRISPR-Cas operons

vintools

Michael Vinyard's utilities

fba

Tools for single-cell feature barcoding analysis

py-crispr-analyser

Python module and scripts to analyse CRISPRs and off-targets from a genome

genome-atlas

Programmable genome‑writing knowledge graph and GNN toolkit for DNA‑modifying enzymes, combining CRISPR/CAST/Fanzor annotations with ESM‑2 embeddings, GraphSAGE/GAT link prediction, and an editor‑selection API for gene‑editing use cases.

crispresso

Software pipeline for the analysis of CRISPR-Cas9 genome editing outcomes from sequencing data

crisprhawk

CRISPR-HAWK: Haplotype and vAriant-aWare guide design toolKit

crispyx

crispyx is a Python package for scalable CRISPR and Perturb-seq screen analysis on disk-backed AnnData files. It provides streaming quality control, normalization, pseudobulk aggregation, and differential expression without loading the full count matrix into memory.

berets

Base Editing screens' Activity-Normalized variant effect size estimation

crispr-bean

Base Editing screens' Activity-Normalized variant effect size estimation

crispio

🌱 Designing CRISPRi experiments in bacteria

pool-sharq

Python wrapper for the Broad Institute GPP's poolq software

pycroquet

python Crispr Read to Oligo QUantification and Evaluation Tool

synthego-ice

Synthego - Inference of CRISPR Edits (ICE)

ogilo-array

Automated construction of oligo library sequences for oligo array synthesis.

beditor

A computational workflow for designing libraries of guide RNAs for CRISPR base editing