BodenmillerGroup / IMCDataAnalysisLinks
R based workflow for multiplexed imaging data
☆32Updated last month
Alternatives and similar repositories for IMCDataAnalysis
Users that are interested in IMCDataAnalysis are comparing it to the libraries listed below
Sorting:
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆78Updated 3 years ago
- CeLEry: cell location recovery in single-cell RNA sequencing☆35Updated 6 months ago
- An R package for handling and analysing imaging mass cytometry data☆27Updated last month
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆64Updated 9 months ago
- UniCell Deconvolve - Cloud Cell Type Deconvolution For Transcriptomic Data☆26Updated 2 years ago
- R package for visualization of highly multiplexed imaging data☆33Updated 2 months ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆86Updated last year
- ☆40Updated 2 years ago
- ☆31Updated 6 months ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆56Updated 3 months ago
- R package to infer multicellular programs from single-cell data using multi-omics factor analysis (MOFA)☆11Updated 2 years ago
- Join subcellular Visium HD bins into cells☆115Updated 3 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆63Updated 3 weeks ago
- ☆29Updated last month
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆15Updated 3 years ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆130Updated 2 weeks ago
- ☆16Updated 9 months ago
- Using self-organizing maps for visualization and interpretation of cytometry data☆29Updated 3 weeks ago
- ☆89Updated last month
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆27Updated last year
- ☆18Updated 2 months ago
- ☆19Updated 5 years ago
- The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This al…☆40Updated 3 months ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆76Updated 2 years ago
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆48Updated 3 years ago
- Evaluation of cell-cell interaction methods by integrating single-cell RNA sequencing data with spatial information☆21Updated 2 years ago
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆37Updated 5 months ago
- Code for major analyses in "Integrative spatial analysis reveals a multi-layered organization of glioblastoma" paper☆50Updated 7 months ago
- Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics☆37Updated 6 months ago
- Code used to benchmark Xenium☆65Updated last year