ZhangLabGT / scMultiSim
A simulator for single cell multi-omics and spatial omics data that provides ground truth to benchmark a wide range of methods.
☆22Updated 2 months ago
Related projects ⓘ
Alternatives and complementary repositories for scMultiSim
- Formalizing and benchmarking open problems in single-cell genomics☆56Updated 2 months ago
- Models and datasets for perturbational single-cell omics☆143Updated 2 years ago
- spatial transcriptome, single cell☆65Updated last year
- ☆48Updated 3 years ago
- GraphCompass: Graph Comparison Tools for Differential Analyses in Spatial Systems☆34Updated 2 months ago
- Additional code and analysis from the single-cell integration benchmarking project☆55Updated last year
- Repository for Nicheformer: a foundation model for single-cell and spatial omics☆64Updated 6 months ago
- A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…☆93Updated this week
- Multi-omic single-cell optimal transport tools☆116Updated this week
- overview of spatial datasets☆69Updated 9 months ago
- A unified approach for integrating spatial and single-cell transcriptomics data by leveraging deep generative models☆53Updated 5 months ago
- Spatial direct messaging detected by bivariate Moran☆24Updated last week
- Perturbation Analysis in the scverse ecosystem.☆141Updated 3 weeks ago
- Probabilistic Alignment of Spatial Transcriptomics Experiments☆78Updated last year
- ☆68Updated 3 months ago
- scPerturb: A resource and a python/R tool for single-cell perturbation data☆109Updated 2 months ago
- ☆47Updated 9 months ago
- ☆44Updated last year
- End-to-end analysis of spatial multi-omics data☆35Updated last month
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆70Updated 2 weeks ago
- Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab☆81Updated 3 weeks ago
- High-Dimensional Gene Expression and Morphology Profiles of Cells across 28,000 Genetic and Chemical Perturbations☆47Updated last year
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆92Updated last week
- single cell foundation model for Gene network inference and more☆24Updated this week
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆25Updated this week
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆38Updated 3 years ago
- ☆48Updated 7 months ago
- Accelerated, Python-only, single-cell integration benchmarking metrics☆49Updated this week
- CZ CELLxGENE Discover Census☆86Updated this week
- Spatial Single-Cell Analysis Toolkit☆74Updated this week