BodenmillerGroup / IMCDataAnalysisLinks
R based workflow for multiplexed imaging data
☆32Updated 2 months ago
Alternatives and similar repositories for IMCDataAnalysis
Users that are interested in IMCDataAnalysis are comparing it to the libraries listed below
Sorting:
- R package for visualization of highly multiplexed imaging data☆33Updated 4 months ago
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆67Updated 11 months ago
- An R package for handling and analysing imaging mass cytometry data☆27Updated this week
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆80Updated 3 years ago
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆49Updated 3 years ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆88Updated last year
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆137Updated 2 weeks ago
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆15Updated 4 years ago
- A package for the analysis of Imaging Mass Cytometry data☆13Updated 4 months ago
- UniCell Deconvolve - Cloud Cell Type Deconvolution For Transcriptomic Data☆26Updated 2 years ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆56Updated 5 months ago
- The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This al…☆41Updated 4 months ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆81Updated 2 years ago
- Spatial Cellular Estimator for Tumors☆57Updated last month
- Evaluation of cell-cell interaction methods by integrating single-cell RNA sequencing data with spatial information☆21Updated 3 years ago
- CeLEry: cell location recovery in single-cell RNA sequencing☆35Updated 7 months ago
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆40Updated 7 months ago
- ☆39Updated last year
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆27Updated last year
- Code related to Shiao, Gouin III, Ing, et al, Cancer Cell 2023.☆12Updated last year
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆65Updated last month
- Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…☆96Updated 3 months ago
- ☆31Updated 2 months ago
- ☆19Updated 6 years ago
- Join subcellular Visium HD bins into cells☆124Updated 4 months ago
- Cell-type Relationship Analysis Workflow Done Across Distances☆38Updated 3 months ago
- Deciphering tumor ecosystems at super-resolution from spatial transcriptomics with TESLA☆61Updated last year
- Bayesian Analytics for Spatial Segmentation☆29Updated 5 months ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆46Updated 4 years ago
- ☆50Updated 4 months ago