Teichlab / bin2cellLinks
Join subcellular Visium HD bins into cells
☆128Updated last week
Alternatives and similar repositories for bin2cell
Users that are interested in bin2cell are comparing it to the libraries listed below
Sorting:
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆141Updated this week
- BANKSY: spatial clustering☆125Updated last month
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆136Updated 8 months ago
- Code used to benchmark Xenium☆70Updated last year
- Repository for ENACT pipeline for end-to-end analysis of Visium HD data☆69Updated 5 months ago
- Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…☆102Updated 5 months ago
- ☆127Updated last year
- Spatial mapping of cell types by integration of transcriptomics data☆98Updated 3 years ago
- ☆124Updated last year
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆83Updated 2 years ago
- ☆126Updated 3 years ago
- A Bayesian model for compositional single-cell data analysis☆180Updated 2 years ago
- Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022☆53Updated 3 years ago
- Identification of persistent local patterns in spatial omics data☆13Updated 6 months ago
- A tool for semi-automatic cell type harmonization and integration☆114Updated last week
- Significance analysis for clustering single-cell RNA-sequencing data☆119Updated last year
- ☆130Updated 6 months ago
- ☆83Updated this week
- ☆36Updated 7 months ago
- TACCO: Transfer of Annotations to Cells and their COmbinations☆61Updated 2 months ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆81Updated 7 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆74Updated 8 months ago
- Methods to discover gene programs on single-cell data☆159Updated last month
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆168Updated 3 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆67Updated last week
- Probabilistic cell segmentation for in situ spatial transcriptomics☆138Updated last week
- Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".☆128Updated last year
- Direct estimation of mean and covariance from single cell RNA seq experiments☆121Updated 6 months ago
- ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …☆88Updated 8 months ago
- This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained her…☆82Updated this week