scPerturb: A resource and a python/R tool for single-cell perturbation data
☆188Feb 25, 2025Updated last year
Alternatives and similar repositories for scPerturb
Users that are interested in scPerturb are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Models and datasets for perturbational single-cell omics☆184Aug 19, 2022Updated 4 years ago
- Single-cell perturbation analysis☆345Updated this week
- GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations☆409Feb 1, 2025Updated last year
- The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell leve…☆152Aug 14, 2024Updated 2 years ago
- ☆40Apr 16, 2025Updated last year
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- An R package for single-cell CRISPR screen data analysis emphasizing statistical rigor, massive scalability, and ease of use.☆40Aug 31, 2026Updated 2 weeks ago
- Learning Single-Cell Perturbation Responses using Neural Optimal Transport☆182Oct 31, 2024Updated last year
- ☆1,632Apr 29, 2026Updated 4 months ago
- Analysis of imbalanced data and its impacts in a scRNA-seq integration setting☆31Mar 7, 2025Updated last year
- Learning meaningful representations of genes☆21Jul 7, 2025Updated last year
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆264Jan 16, 2026Updated 8 months ago
- Single cell perturbation prediction☆355Dec 5, 2024Updated last year
- Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.☆159Feb 6, 2025Updated last year
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆510Jul 26, 2026Updated last month
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- This is the alpha version of the CellOracle package☆499Apr 30, 2026Updated 4 months ago
- Evaluation suite for transcriptomic perturbation effect prediction models. Includes support for single-cell foundation models.☆41Jul 29, 2025Updated last year
- An R package to implement Differential Gene Set Enrichment Analysis (DGSEA): A statistical approach to quantify the relative enrichment o…☆15Apr 12, 2023Updated 3 years ago
- Interpret perturbation responses from scRNA-seq perturbation experiments☆19Mar 4, 2025Updated last year
- ☆19May 29, 2026Updated 3 months ago
- SIGnature is a Python package that empowers researchers to rapidly query gene sets across diverse single-cell RNA sequencing (scRNA-seq) …☆48May 27, 2026Updated 3 months ago
- Bayesian Sparse Additive Perturbation Regression, code and simulations☆17Apr 29, 2025Updated last year
- Context specific and dynamic gene regulatory network reconstruction and analysis☆131Aug 3, 2026Updated last month
- The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell lev…☆186Sep 7, 2023Updated 3 years 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.
- State is a machine learning model that predicts cellular perturbation response across diverse contexts☆695Jul 24, 2026Updated last month
- scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics☆125Sep 29, 2025Updated 11 months ago
- Example of run CytoSig and reproduce prediction results on bulk and single-cell cohorts☆16Jul 5, 2023Updated 3 years ago
- Deep probabilistic analysis of single-cell and spatial omics data☆1,695Updated this week
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆196Aug 12, 2025Updated last year
- A tool for semi-automatic cell type classification☆504May 22, 2026Updated 3 months ago
- CellDrift: temporal perturbation effects for single cell data☆13Dec 3, 2022Updated 3 years ago
- ☆68Sep 13, 2024Updated 2 years ago
- ☆42Jun 8, 2026Updated 3 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- CellBox: Interpretable Machine Learning for Perturbation Biology☆56Jul 27, 2023Updated 3 years ago
- ☆135Aug 23, 2026Updated 3 weeks ago
- Conditional out-of-distribution prediction☆63Aug 2, 2024Updated 2 years ago
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆486Jun 6, 2025Updated last year
- Comprehensive suite for evaluating perturbation prediction models☆160Jul 27, 2026Updated last month
- ☆14Jun 10, 2025Updated last year
- Arc Virtual Cell Atlas☆594Aug 28, 2026Updated 3 weeks ago