Histology Topography Cytometry Analysis Toolbox
☆69Oct 28, 2025Updated 4 months ago
Alternatives and similar repositories for histoCAT
Users that are interested in histoCAT are comparing it to the libraries listed below
Sorting:
- Helper functions for working with inForm data.☆20May 3, 2022Updated 3 years ago
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆11Mar 3, 2023Updated 3 years ago
- CellProfiler plugins for multiplexed image analysis☆12Feb 16, 2021Updated 5 years ago
- Evaluating the quality of a cell segmentation method without reference.☆13Jul 26, 2025Updated 7 months ago
- Tools to handle IMC data☆24Mar 31, 2022Updated 3 years ago
- Microscopy Image Cytometry Toolkit☆114Jul 15, 2022Updated 3 years ago
- The AstroPath Pipeline was developed to process whole slide multiplex immunofluorescence data from microscope to database at single cell …☆19Apr 21, 2025Updated 10 months ago
- A pixel classification based multiplexed image segmentation pipeline☆106Dec 5, 2023Updated 2 years ago
- Image stitching☆12Dec 23, 2018Updated 7 years ago
- Minimum Information about Tissue Imaging☆21Oct 18, 2023Updated 2 years ago
- ☆13Jan 16, 2019Updated 7 years ago
- A toolkit for processing multiplexed tissue images☆67Feb 26, 2026Updated last week
- ☆30Oct 4, 2024Updated last year
- Algorithmic and Utility Extensions for the Imaris Program☆20Feb 2, 2026Updated last month
- Single cell interactive plotting tools☆24Jun 12, 2020Updated 5 years ago
- High quality visualization for volumetric image data☆56Updated this week
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆31Feb 12, 2026Updated 3 weeks ago
- ☆21Mar 22, 2023Updated 2 years ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆56Jun 25, 2025Updated 8 months ago
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆39May 7, 2024Updated last year
- A computational toolkit in R for the integration, exploration, and analysis of high-dimensional single-cell cytometry and imaging data.☆69Sep 19, 2025Updated 5 months ago
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆39Sep 23, 2025Updated 5 months ago
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆71Nov 4, 2024Updated last year
- ☆23Mar 26, 2021Updated 4 years ago
- Integrated pipeline for multiplexed image analysis☆103Jan 7, 2026Updated last month
- Identify circular trajectories in scRNA-seq data using an autoencoder with sinusoidal activations☆24Dec 17, 2021Updated 4 years ago
- ☆14Oct 24, 2025Updated 4 months ago
- Code and results from TotalSeqC antibody titration and pipeline benchmarking for CITE-seq experiments☆10Mar 13, 2021Updated 4 years ago
- QuPath TIL classifier for Melanoma on HE slides☆10Jul 24, 2019Updated 6 years ago
- This helps creating high quality figures for use in manuscripts and presentations.☆12May 14, 2025Updated 9 months ago
- QuPath extension to interactively align images☆26Aug 7, 2025Updated 6 months ago
- Web Image Processing Pipeline (WIPP)☆26Dec 19, 2025Updated 2 months ago
- Dataset EXploration & Processing☆33May 11, 2023Updated 2 years ago
- ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration☆165Feb 19, 2026Updated 2 weeks ago
- Framework for image and flow cytometry analysis☆32Jan 3, 2026Updated 2 months ago
- QuPath extension to work with WSInfer - https://wsinfer.readthedocs.io/☆28Dec 3, 2025Updated 3 months ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Apr 16, 2021Updated 4 years ago
- ESICCC: A systematic computational framework for evaluation, selection and integration of cell-cell communication inference methods☆13Jan 10, 2024Updated 2 years ago
- List of openly available dataset generated by our lab☆13Jan 9, 2026Updated last month