BodenmillerGroup / cytomapperLinks
R package for visualization of highly multiplexed imaging data
☆32Updated 3 weeks ago
Alternatives and similar repositories for cytomapper
Users that are interested in cytomapper are comparing it to the libraries listed below
Sorting:
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆10Updated 2 years ago
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆14Updated 3 years ago
- R based workflow for multiplexed imaging data☆32Updated this week
- ☆27Updated 8 months ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆53Updated last year
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆35Updated last year
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆62Updated 7 months ago
- A computational toolkit in R for the integration, exploration, and analysis of high-dimensional single-cell cytometry and imaging data.☆62Updated last month
- ☆27Updated 8 months ago
- An R package for handling and analysing imaging mass cytometry data☆26Updated this week
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆37Updated last year
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆47Updated 3 years ago
- Spatial Single-Cell Analysis Toolkit☆92Updated last month
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆75Updated 3 years ago
- Image Mass Cytometry analysis pipeline☆25Updated 2 weeks ago
- An R package for performing cell typing in SMI and other single cell data☆37Updated last month
- The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This al…☆39Updated last month
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆27Updated 9 months ago
- ☆31Updated last month
- Histology Topography Cytometry Analysis Toolbox☆67Updated last year
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆126Updated 3 weeks ago
- Tools to handle IMC data☆23Updated 3 years ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆80Updated last year
- Helper functions for working with inForm data.☆17Updated 3 years ago
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆62Updated last month
- ☆19Updated last week
- This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained her…☆70Updated this week
- Python package for Probe set selection for targeted spatial transcriptomics.☆38Updated 6 months ago
- ☆19Updated 5 years ago
- Probabilistic cell segmentation for in situ spatial transcriptomics☆101Updated this week