BodenmillerGroup / cytomapperLinks
R package for visualization of highly multiplexed imaging data
☆33Updated 3 months ago
Alternatives and similar repositories for cytomapper
Users that are interested in cytomapper are comparing it to the libraries listed below
Sorting:
- An R package for handling and analysing imaging mass cytometry data☆27Updated 2 months ago
- ☆20Updated this week
- R based workflow for multiplexed imaging data☆32Updated 2 months ago
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆66Updated 10 months ago
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆80Updated 3 years ago
- ☆19Updated 5 years ago
- 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
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆49Updated 3 years ago
- Helper functions for working with inForm data.☆18Updated 3 years ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆88Updated last year
- Histology Topography Cytometry Analysis Toolbox☆67Updated 2 years ago
- ☆39Updated last year
- Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.☆16Updated 4 months ago
- ☆28Updated 11 months ago
- Spatial Single-Cell Analysis Toolkit☆98Updated 2 months ago
- An R package for performing cell typing in SMI and other single cell data☆39Updated 3 months ago
- A pixel classification based multiplexed image segmentation pipeline☆100Updated last year
- From geospatial to spatial -omics☆96Updated this week
- ☆27Updated 11 months ago
- ☆31Updated 3 months ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆55Updated 2 months ago
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆27Updated last year
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆130Updated this week
- R package to infer multicellular programs from single-cell data using multi-omics factor analysis (MOFA)☆11Updated 2 years ago
- ☆62Updated 2 years ago
- Identification of spatial homogeneous regions☆21Updated 8 months ago
- Cell-type Relationship Analysis Workflow Done Across Distances☆36Updated 3 months ago
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆64Updated 2 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆64Updated last week
- Python package for Probe set selection for targeted spatial transcriptomics.☆43Updated last week