BodenmillerGroup / cytomapperLinks
R package for visualization of highly multiplexed imaging data
☆33Updated 5 months ago
Alternatives and similar repositories for cytomapper
Users that are interested in cytomapper 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…☆81Updated 3 years ago
- R based workflow for multiplexed imaging data☆36Updated 4 months ago
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆68Updated last year
- ☆23Updated 2 weeks ago
- An R package for handling and analysing imaging mass cytometry data☆28Updated 3 weeks ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆91Updated last year
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆50Updated 3 years ago
- ☆30Updated last year
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆16Updated 4 years ago
- Spatial Single-Cell Analysis Toolkit☆103Updated 4 months ago
- A pixel classification based multiplexed image segmentation pipeline☆101Updated last year
- Histology Topography Cytometry Analysis Toolbox☆69Updated 2 weeks ago
- A computational toolkit in R for the integration, exploration, and analysis of high-dimensional single-cell cytometry and imaging data.☆64Updated last month
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆57Updated 4 months ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆141Updated this week
- This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained her…☆82Updated this week
- Python package for Probe set selection for targeted spatial transcriptomics.☆45Updated last week
- List of Spatial Transcriptomics related Tools organized per category☆83Updated this week
- ☆19Updated 6 years ago
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆38Updated last month
- Cell-type Relationship Analysis Workflow Done Across Distances☆37Updated 5 months ago
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆40Updated 8 months ago
- ☆31Updated 5 months ago
- ☆41Updated 2 years ago
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆65Updated 4 months ago
- ☆27Updated last year
- Multiview Intercellular SpaTial modeling framework☆71Updated 5 months ago
- Identification of spatial homogeneous regions☆21Updated last month
- The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This al…☆41Updated 5 months ago
- An R package for performing cell typing in SMI and other single cell data☆43Updated 5 months ago