Moldia / Xenium_benchmarkingLinks
Code used to benchmark Xenium
☆73Updated last year
Alternatives and similar repositories for Xenium_benchmarking
Users that are interested in Xenium_benchmarking are comparing it to the libraries listed below
Sorting:
- Join subcellular Visium HD bins into cells☆135Updated 3 months ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆149Updated 2 weeks ago
- Repository for ENACT pipeline for end-to-end analysis of Visium HD data☆72Updated 7 months ago
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆138Updated 11 months ago
- ☆52Updated 3 months ago
- Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…☆109Updated 7 months ago
- BANKSY: spatial clustering☆136Updated 3 months ago
- ☆129Updated last year
- Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022☆54Updated 3 years ago
- TACCO: Transfer of Annotations to Cells and their COmbinations☆62Updated 5 months ago
- ☆34Updated 3 months ago
- Spatial mapping of cell types by integration of transcriptomics data☆100Updated 3 years ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆88Updated 3 years ago
- ☆129Updated 3 years ago
- Python implementation of Milo for differential abundance testing on KNN graph☆81Updated 11 months ago
- ☆60Updated last year
- BANKSY: Spatial Clustering Algorithm that Unifies Cell-Typing and Tissue Domain Segmentation. Python package for spatial transcriptomics …☆72Updated 2 months ago
- Spatial direct messaging detected by bivariate Moran☆32Updated 6 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆69Updated 3 months ago
- Data processing and analysis workflow for GAGE-seq, a coassay of single-cell HiC and single-cell RNA-seq☆15Updated 4 months ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆58Updated last week
- GASTON: deep learning algorithm learns "topography" of a tissue slice from spatial transcriptomics data☆70Updated 2 months ago
- ☆129Updated last year
- Spatial Cellular Estimator for Tumors☆60Updated last month
- UniCell Deconvolve - Cloud Cell Type Deconvolution For Transcriptomic Data☆27Updated 2 years ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆84Updated 10 months ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆48Updated 4 years ago
- End-to-end analysis of spatial multi-omics data☆102Updated last week
- SenePy is a set of tools to score single-cells based on their expression of cell-specific senescence markers. Please see the following pu…☆47Updated last year
- Detect hierarchical structures in cell-cell communications☆16Updated last year