nolanlab / NeighborhoodCoordinationLinks
Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive front"
☆58Updated 6 months ago
Alternatives and similar repositories for NeighborhoodCoordination
Users that are interested in NeighborhoodCoordination are comparing it to the libraries listed below
Sorting:
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆47Updated 3 years ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆119Updated this week
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆35Updated last year
- Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…☆66Updated last month
- Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022☆53Updated 2 years ago
- Code used to benchmark Xenium☆58Updated 11 months ago
- ☆48Updated last week
- Spatial Cellular Estimator for Tumors☆52Updated last week
- Spatial Single-Cell Analysis Toolkit☆91Updated 2 weeks ago
- This repository contains all code used for the Human Lung Cell Atlas project.☆49Updated last year
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆27Updated 10 months ago
- Bayesian Analytics for Spatial Segmentation☆28Updated 3 weeks ago
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆34Updated 2 months 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
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆10Updated 2 years ago
- ☆52Updated last year
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆80Updated last year
- Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…☆39Updated 3 years ago
- ☆27Updated 3 months ago
- The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This al…☆38Updated last week
- Spatial direct messaging detected by bivariate Moran☆26Updated last month
- ☆35Updated 2 weeks ago
- ☆25Updated 3 months ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆42Updated 3 years ago
- Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics☆35Updated 3 months ago
- Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".☆112Updated 8 months ago
- ☆29Updated 3 months ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆52Updated last month
- SPATA Package for spatial gene expression analysis☆23Updated 3 years ago
- Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics☆35Updated 3 weeks ago