10XGenomics / HumanColonCancer_VisiumHDLinks
Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using high definition spatial profiling"
☆92Updated 2 months ago
Alternatives and similar repositories for HumanColonCancer_VisiumHD
Users that are interested in HumanColonCancer_VisiumHD are comparing it to the libraries listed below
Sorting:
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆76Updated 2 years ago
- Construct Tumor Transition Zone Microenvironment☆48Updated 2 months ago
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆133Updated 6 months ago
- ☆125Updated 3 years ago
- Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".☆123Updated 11 months ago
- inferring cell-cell communication from scRNA-seq of ligand-receptor☆83Updated last year
- ☆106Updated 4 years ago
- Join subcellular Visium HD bins into cells☆115Updated 3 months ago
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆154Updated 2 weeks ago
- BANKSY: spatial clustering☆119Updated last week
- R package for pathway analysis in scRNA-seq data☆75Updated last year
- Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…☆38Updated 3 years ago
- Data files and code for analysis of single-cell ccRCC data for the manuscript "Tumor-Specific Cell Populations in Clear Cell Renal Carcin…☆51Updated 4 years ago
- Quantifying metabolism activity at the single-cell resolution☆137Updated 2 months ago
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆76Updated 4 months ago
- ☆37Updated last year
- Codes used in pan-T cell analysis☆63Updated 2 years ago
- The integration of single cell rank-based gene set enrichment analysis☆130Updated last month
- ☆31Updated 3 years ago
- Assessing the purity of single cell population☆134Updated 3 years ago
- Data processing and analysis related code associated with the study "A single-cell and spatially resolved atlas of human breast cancers".☆118Updated 11 months ago
- ☆47Updated last year
- STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)☆108Updated 4 months ago
- Methods to discover gene programs on single-cell data☆141Updated last month
- Codes for the scPLC project☆68Updated 2 years ago
- ☆28Updated 5 months ago
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆78Updated last month
- ☆123Updated last year
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆56Updated 3 months ago
- Code used to create the core and extended GBmap, including downstream analyses (cell-cell interactions, spatial transcriptomics deconvolu…☆60Updated 2 years ago