xianglin226 / Benchmarking-Single-Cell-Perturbation
Single-Cell (Perturbation) Model Library
☆54Updated last month
Alternatives and similar repositories for Benchmarking-Single-Cell-Perturbation:
Users that are interested in Benchmarking-Single-Cell-Perturbation are comparing it to the libraries listed below
- Codes for paper: Evaluating the Utilities of Large Language Models in Single-cell Data Analysis.☆68Updated 3 months ago
- Repository for Nicheformer: a foundation model for single-cell and spatial omics☆90Updated last month
- Models and datasets for perturbational single-cell omics☆154Updated 2 years ago
- scPerturb: A resource and a python/R tool for single-cell perturbation data☆124Updated 2 months ago
- ☆20Updated 6 months ago
- Evaluation suite for transcriptomic perturbation effect prediction models. Includes support for single-cell foundation models.☆23Updated last month
- The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell leve…☆99Updated 8 months ago
- A model developed for the generation of scRNA-seq data☆59Updated 2 months ago
- Official repo for CellPLM: Pre-training of Cell Language Model Beyond Single Cells.☆83Updated last year
- ☆62Updated last year
- Code for evaluating single cell foundation models scBERT and scGPT☆43Updated 8 months ago
- ☆79Updated last year
- PerturbNet is a deep generative model that can predict the distribution of cell states induced by chemical or genetic perturbation☆32Updated last week
- Additional code and analysis from the single-cell integration benchmarking project☆61Updated 2 years ago
- Transformer for One-Stop Interpretable Cell-type Annotation☆139Updated last year
- PRnet is a flexible and scalable perturbation-conditioned generative model predicting transcriptional responses to unseen complex perturb…☆46Updated 4 months ago
- ☆29Updated 2 years ago
- ☆34Updated 11 months ago
- This repository implements Graph Variational Causal Inference (graphVCI), a framework that integrates prior knowledge of relational infor…☆17Updated 2 months ago
- End-to-end analysis of spatial multi-omics data☆68Updated last month
- Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.☆112Updated 3 months ago
- Code for "LangCell: Language-Cell Pre-training for Cell Identity Understanding".☆58Updated 4 months ago
- A unified approach for integrating spatial and single-cell transcriptomics data by leveraging deep generative models☆63Updated 11 months ago
- Repository for paper scMulan: a multitask generative pre-trained language model for single-cell analysis.☆57Updated 11 months ago
- scDiff: A General Single-Cell Analysis Framework via Conditional Diffusion Generative Models☆28Updated 8 months ago
- single cell foundation model for Gene network inference and more☆74Updated this week
- [NeurIPS 2024 Spotlight] A cell-ontology guided transcriptome foundation model☆14Updated last month
- ☆58Updated 7 months ago
- Single-cell biological network inference using a heterogeneous graph transformer☆72Updated 2 months ago
- A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…☆185Updated 2 months ago