Moldia / Xenium_benchmarking
Code used to benchmark Xenium
☆43Updated 7 months ago
Alternatives and similar repositories for Xenium_benchmarking:
Users that are interested in Xenium_benchmarking are comparing it to the libraries listed below
- Join subcellular Visium HD bins into cells☆77Updated 2 months ago
- Bayesian Analytics for Spatial Segmentation☆23Updated 4 months ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆106Updated this week
- ☆114Updated 2 years ago
- Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022☆52Updated 2 years ago
- BANKSY: spatial clustering☆86Updated 6 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆59Updated 8 months ago
- Spatial direct messaging detected by bivariate Moran☆25Updated last month
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆34Updated last year
- Python implementation of Milo for differential abundance testing on KNN graph☆62Updated this week
- Spatial mapping of cell types by integration of transcriptomics data☆89Updated 2 years ago
- Single cell omics biology annotations☆49Updated 3 weeks ago
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆121Updated this week
- ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …☆72Updated last week
- ☆107Updated 9 months ago
- UniCell Deconvolve - Cloud Cell Type Deconvolution For Transcriptomic Data☆23Updated last year
- ☆69Updated last week
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆71Updated 3 months ago
- ☆44Updated 4 months ago
- A tool for semi-automatic cell type harmonization and integration☆102Updated last year
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆50Updated 4 months ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆39Updated 3 years ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆61Updated 2 years ago
- Repository for ENACT pipeline for end-to-end analysis of Visium HD data☆28Updated 2 weeks ago
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆60Updated 9 months ago
- Direct estimation of mean and covariance from single cell RNA seq experiments☆96Updated 2 weeks ago
- pipeline for demultiplex and align both ATAC and RNA data generated in SHARE-seq☆16Updated 2 years ago
- This repository contains all code used for the Human Lung Cell Atlas project.☆46Updated last year
- ☆105Updated last year
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆30Updated this week