Single cell perturbation prediction
☆342Dec 5, 2024Updated last year
Alternatives and similar repositories for scgen
Users that are interested in scgen are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆33Oct 4, 2020Updated 5 years ago
- Reference mapping for single-cell genomics☆404Mar 21, 2026Updated last month
- Deep probabilistic analysis of single-cell and spatial omics data☆1,607Apr 24, 2026Updated last week
- Deep count autoencoder for denoising scRNA-seq data☆271Mar 21, 2024Updated 2 years ago
- Conditional out-of-distribution prediction☆63Aug 2, 2024Updated last year
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Single-cell analysis in Python. Scales to >100M cells.☆2,432Updated this week
- Models and datasets for perturbational single-cell omics☆176Aug 19, 2022Updated 3 years ago
- Batch balanced KNN☆178Oct 11, 2023Updated 2 years ago
- RNA Velocity generalized through dynamical modeling☆497Feb 25, 2026Updated 2 months ago
- The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell leve…☆145Aug 14, 2024Updated last year
- Panoramic stitching of single cell data☆295Jul 14, 2025Updated 9 months ago
- Benchmarking analysis of data integration tools☆413Updated this week
- This is the alpha version of the CellOracle package☆447Feb 3, 2026Updated 2 months ago
- CellRank: dynamics from multi-view single-cell data☆443Apr 24, 2026Updated last week
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆600Jun 26, 2025Updated 10 months ago
- A package to help convert different single-cell data formats to each other☆465Feb 20, 2026Updated 2 months ago
- The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell lev…☆185Sep 7, 2023Updated 2 years ago
- Differential expression analysis for single-cell RNA-seq data.☆206Oct 21, 2025Updated 6 months ago
- Quantifying experimental perturbations at single cell resolution☆115Sep 27, 2024Updated last year
- scPerturb: A resource and a python/R tool for single-cell perturbation data☆173Feb 25, 2025Updated last year
- Single-cell perturbation analysis☆309Updated this week
- Learning Single-Cell Perturbation Responses using Neural Optimal Transport☆171Oct 31, 2024Updated last year
- MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological …☆381Oct 3, 2024Updated last year
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Regulatory networks with Direct Information in python☆40Mar 9, 2023Updated 3 years ago
- A Bayesian model for compositional single-cell data analysis☆196Jan 13, 2026Updated 3 months ago
- A tool for semi-automatic cell type classification☆473Mar 21, 2026Updated last month
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆429Updated this week
- R package for the joint analysis of multiple single-cell RNA-seq datasets☆224Updated this week
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆392Jul 30, 2025Updated 9 months ago
- Spatial Single Cell Analysis in Python☆566Updated this week
- ☆1,552Updated this week
- Conversion between scRNA-seq objects☆206Apr 16, 2026Updated 2 weeks ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- data and model repository for single-cell data☆135Dec 21, 2023Updated 2 years ago
- GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations☆356Feb 1, 2025Updated last year
- R package implementation of Milo for testing for differential abundance in KNN graphs☆428Apr 23, 2026Updated last week
- ☆361Dec 9, 2021Updated 4 years ago
- AUCell: score single cells with gene regulatory networks☆191Mar 9, 2024Updated 2 years ago
- A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.☆97Jul 31, 2019Updated 6 years ago
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆187Mar 27, 2025Updated last year