Sanofi-Public / enact-pipelineLinks
Repository for ENACT pipeline for end-to-end analysis of Visium HD data
☆71Updated 7 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:
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆88Updated 3 years ago
- BANKSY: spatial clustering☆133Updated 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
- Code used to create the core and extended GBmap, including downstream analyses (cell-cell interactions, spatial transcriptomics deconvolu…☆65Updated 3 years ago
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆78Updated 5 months ago
- ☆34Updated 2 months ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆57Updated last month
- Construct Tumor Transition Zone Microenvironment☆49Updated 6 months ago
- Join subcellular Visium HD bins into cells☆132Updated 2 months ago
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆137Updated 10 months ago
- Aligning gene expression trajectories of single-cell reference and query systems☆80Updated 5 months ago
- 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 11 months ago
- ☆127Updated 3 years ago
- Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".☆130Updated last year
- Spatial Cellular Estimator for Tumors☆60Updated 2 weeks ago
- ☆54Updated 5 months ago
- ☆32Updated 3 years ago
- R package for pathway analysis in scRNA-seq data☆77Updated last year
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆69Updated 2 months ago
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆62Updated last year
- Code used to benchmark Xenium☆73Updated last year
- ☆60Updated last week
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆34Updated 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
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆83Updated 9 months ago
- Single Cell Analysis Operations☆13Updated last month
- ☆56Updated last year
- A tool for semi-automatic cell type harmonization and integration☆117Updated 2 months ago
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆80Updated 8 months ago
- Analysis of cell-cell communication at single-cell resolution☆105Updated last year