nolanlab / CODEXLinks
Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation
☆47Updated 3 years ago
Alternatives and similar repositories for CODEX
Users that are interested in CODEX are comparing it to the libraries listed below
Sorting:
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆62Updated 7 months ago
- The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This al…☆39Updated last month
- Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022☆53Updated 3 years 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
- 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
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆27Updated 11 months ago
- An R package for handling and analysing imaging mass cytometry data☆26Updated this week
- ☆19Updated 5 years ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆43Updated 3 years ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆126Updated 3 weeks ago
- Image Mass Cytometry analysis pipeline☆25Updated 2 weeks ago
- ☆11Updated 4 years ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆80Updated last year
- ☆52Updated 2 years ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆60Updated last year
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆62Updated last month
- Spatial Single-Cell Analysis Toolkit☆92Updated last month
- An R package for performing cell typing in SMI and other single cell data☆37Updated last month
- ☆36Updated last year
- ☆31Updated last month
- ☆53Updated last year
- Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics☆35Updated 2 weeks ago
- Gene expression deconvolution using dampened weighted least squares☆28Updated 4 years ago
- ☆34Updated 5 months ago
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆34Updated 3 months ago
- Single-Cell Clustering Assessment Framework☆101Updated last year
- R package for visualization of highly multiplexed imaging data☆32Updated 3 weeks ago
- Quasilinear data representations for single-cell omics data analysis☆42Updated 2 years ago
- SPROD: Spatial expression profiling de-noising☆37Updated 2 years ago