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Crispr Python Packages

Python packages with the GitHub topic crispr. Sorted by relevance, with stars and monthly downloads.
EinarOlafsson
spacr

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

5K 6 1
Chipdelmal
mgsurve

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

5K 1 1
Chipdelmal
monet-mgdrive

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

3K 0 0
althonos
diced

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

2K 4 1
ArcInstitute
screenpro2

Flexible analysis of high-content CRISPR screening

2K 32 7
Goosang-Yu
genet

GenET: Genome Editing Toolkit

1K 21 6
EinarOlafsson
spacr-nightly

Spatial phenotype analysis of crisp screens (SpaCr)

1K 6 0
EmanuelGoncalves
cy

Python module to analyse CRISPR-based libraries

1K 14 4
Russel88
cctyper

CRISPRCasTyper: Automatic detection and subtyping of CRISPR-Cas operons

808 108 22
mvinyard
vintools

Michael Vinyard's utilities

774 2 2
jlduan
fba

Tools for single-cell feature barcoding analysis

751 6 3
sanger-cellular-informatics
py-crispr-analyser

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

742 0 0
ahmedanees-m
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.

691 0 0
lucapinello
crispresso

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

560 141 58
pinellolab
crisprhawk

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

500 7 4
jaydu1
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.

489 1 0
pinellolab
berets

Base Editing screens' Activity-Normalized variant effect size estimation

452 10 3
pinellolab
crispr-bean

Base Editing screens' Activity-Normalized variant effect size estimation

272 10 3
scbirlab
crispio

🌱 Designing CRISPRi experiments in bacteria

234 0 1
mvinyard
pool-sharq

Python wrapper for the Broad Institute GPP's poolq software

233 0 0
cancerit
pycroquet

python Crispr Read to Oligo QUantification and Evaluation Tool

175 2 1
synthego-open
synthego-ice

Synthego - Inference of CRISPR Edits (ICE)

166 68 35
scbirlab
ogilo-array

Automated construction of oligo library sequences for oligo array synthesis.

141 0 0
rraadd88
beditor

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

119 19 5
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