Sanofi-Public / enact-pipelineLinks
Repository for ENACT pipeline for end-to-end analysis of Visium HD data
☆71Updated 5 months ago
Alternatives and similar repositories for enact-pipeline
Users that are interested in enact-pipeline are comparing it to the libraries listed below
Sorting:
- Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".☆129Updated last year
- BANKSY: spatial clustering☆130Updated last month
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆86Updated 2 years ago
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆136Updated 9 months ago
- ☆126Updated 3 years ago
- Construct Tumor Transition Zone Microenvironment☆49Updated 5 months ago
- ☆38Updated 8 months ago
- R package for pathway analysis in scRNA-seq data☆76Updated last year
- Join subcellular Visium HD bins into cells☆128Updated last month
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆57Updated last week
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆78Updated 4 months ago
- Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…☆104Updated 5 months ago
- A tool for semi-automatic cell type harmonization and integration☆115Updated last month
- Analysis of cell-cell communication at single-cell resolution☆105Updated last year
- STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)☆110Updated 7 months ago
- inferring cell-cell communication from scRNA-seq of ligand-receptor☆84Updated 2 years ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆81Updated 8 months ago
- ☆59Updated last year
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆79Updated 7 months ago
- Aligning gene expression trajectories of single-cell reference and query systems☆77Updated 3 months ago
- Code used to create the core and extended GBmap, including downstream analyses (cell-cell interactions, spatial transcriptomics deconvolu…☆65Updated 2 years ago
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆33Updated last year
- Significance analysis for clustering single-cell RNA-sequencing data☆119Updated last year
- ☆31Updated 3 years ago
- ☆22Updated last year
- ☆55Updated last year
- Code used to benchmark Xenium☆71Updated last year
- R implementation of GeneTrajectory☆65Updated last year
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆62Updated last year
- Data files and code for analysis of single-cell ccRCC data for the manuscript "Tumor-Specific Cell Populations in Clear Cell Renal Carcin…☆53Updated 4 years ago