R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in cutaneous T cell lymphoma".
☆17Sep 26, 2021Updated 4 years ago
Alternatives and similar repositories for SpatialScore
Users that are interested in SpatialScore are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆13Mar 3, 2023Updated 3 years ago
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆75Nov 4, 2024Updated last year
- ☆19Apr 5, 2024Updated 2 years ago
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆57May 20, 2022Updated 4 years ago
- Spatial RNA velocity☆10Oct 3, 2024Updated last year
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- A python package for Multiomics and Ecological Spatial Analysis (MESA)☆25Apr 8, 2025Updated last year
- MARIO: single-cell proteomic data matching and integration using both shared and distinct features☆24Jan 9, 2026Updated 6 months ago
- A computational tool for identification of 3D multi-modal spatial neighborhoods☆16Aug 1, 2025Updated 11 months ago
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆41May 7, 2024Updated 2 years ago
- QuPath extension to work with WSInfer - https://wsinfer.readthedocs.io/☆30Dec 3, 2025Updated 7 months ago
- Downloads and prepares public PDAC data for analysis, and provides some basic tools for this analysis.☆15Dec 2, 2025Updated 7 months ago
- ☆20Sep 19, 2025Updated 10 months ago
- Pixie pipeline described in Liu et al., Robust phenotyping of highly multiplexed tissue imaging data using pixel-level clustering☆12Aug 3, 2023Updated 2 years ago
- VorteX Clustering Environment - Java graphical tool for single-cell analysis, clustering and visualization. Latest release:☆35Apr 17, 2023Updated 3 years ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- ☆34Apr 3, 2026Updated 3 months ago
- ☆71Jan 18, 2023Updated 3 years ago
- Tools for NanoString GeoMx Digital Spatial Profiler data for reading DCC and PKC files to NanoStringGeomxSet class, Normalization and QC.…☆47Sep 29, 2025Updated 9 months ago
- 📦 Quickly and easily add a mini map to web page☆21Aug 27, 2021Updated 4 years ago
- Spatial Single-Cell Analysis Toolkit☆113Mar 11, 2026Updated 4 months ago
- Create web-based OME-Zarr galleries☆26Jul 7, 2026Updated 2 weeks ago
- R package for visualization of highly multiplexed imaging data☆36Jun 9, 2026Updated last month
- QuPath extension for Cellsparse☆19May 6, 2025Updated last year
- Python tools for creating and manipulating OME-TIFF multi-resolution pyramid images.☆18Aug 8, 2025Updated 11 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- ☆74May 28, 2025Updated last year
- Method for de novo mutation calling from droplet based single cell RNA seq data☆14Oct 6, 2021Updated 4 years ago
- SNV calling from single cell sequencing☆120Nov 11, 2024Updated last year
- public production version of sequin to share with the public☆11Jun 12, 2026Updated last month
- Holds the code and data to reproduce the analyses of Danaher & Kim et a;, "Advances in mixed cell deconvolution enable quantification of …☆12Dec 8, 2021Updated 4 years ago
- R package for metabolic enzyme enrichment anaylsis☆14Oct 24, 2025Updated 8 months ago
- Detect somatic variants from tumor and normal WGS/WXS data☆20Updated this week
- Nextflow pipeline to convert BAM to FASTQ, align, perform QC, assess targeted coverage, call gSNP, call sSNV, call mtSNV, call SVs, call …☆20Nov 24, 2025Updated 7 months ago
- ImgLib2 RealTransform brought to QuPath☆33Mar 12, 2026Updated 4 months ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- ☆35Oct 10, 2025Updated 9 months ago
- The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This al…☆43Feb 5, 2026Updated 5 months ago
- ☆33May 4, 2025Updated last year
- QTL mapping for Diversity Outbred mice (and other multi-founder advanced intercrosses)☆14Apr 3, 2024Updated 2 years ago
- Panoptic segmentation algorithms for 2D and 3D electron microscopy in napari☆33Jul 10, 2026Updated last week
- Foundation of vector-like and list-like containers in Bioconductor☆18Jul 7, 2026Updated 2 weeks ago
- ☆26Jun 6, 2023Updated 3 years ago