The AstroPath Pipeline was developed to process whole slide multiplex immunofluorescence data from microscope to database at single cell resolution.
☆19Apr 21, 2025Updated 10 months ago
Alternatives and similar repositories for AstroPathPipeline
Users that are interested in AstroPathPipeline are comparing it to the libraries listed below
Sorting:
- Computer simulator of multiplex tissue images from a set of user-defined parameters☆10Dec 13, 2022Updated 3 years ago
- Piecewise alignment for layers of mosaics☆36Feb 18, 2026Updated last week
- Minimum Information about Tissue Imaging☆21Oct 18, 2023Updated 2 years ago
- Spatial Image Analysis of Tissues☆15Dec 8, 2022Updated 3 years ago
- Download and Convert METASPACE datasets to common formats such as AnnData or SpatialData☆15Updated this week
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆31Feb 12, 2026Updated 2 weeks ago
- Histology Topography Cytometry Analysis Toolbox☆69Oct 28, 2025Updated 4 months ago
- ☆15Jul 8, 2024Updated last year
- ☆18Apr 5, 2024Updated last year
- deep learning pipeline repository for the paper "Geospatial immune variability illuminates differential evolution of lung adenocarcinoma…☆52May 27, 2020Updated 5 years ago
- Variance pooling to incorporate ITH in CPath models - MICCAI 2022☆26Sep 27, 2022Updated 3 years ago
- Pan-Cancer Integrative Histology-Genomic Analysis via Multimodal Deep Learning - Cancer Cell☆234Feb 7, 2023Updated 3 years ago
- PAthological QUpath Obsession - QuPath and Python conversations☆134Aug 29, 2025Updated 6 months ago
- FlowSOM algorithm in Python, using self-organizing maps and minimum spanning tree for visualization and interpretation of cytometry data☆34Jun 16, 2022Updated 3 years ago
- Blazing fast nuclei segmentation for brightfield Whole Slide Images☆37Feb 6, 2026Updated 3 weeks ago
- The official deployment of the Digital Slide Archive and HistomicsTK.☆134Updated this week
- 🔥 🚀 Blazingly fast pipeline for patch-based classification in whole slide images☆84Jul 11, 2024Updated last year
- R library to normalize cytometry data☆39Jan 16, 2026Updated last month
- ZoomMIL is a multiple instance learning (MIL) method that learns to perform multi-level zooming for efficient Whole-Slide Image (WSI) cla…☆68Nov 3, 2022Updated 3 years ago
- HoVer-Net inference code for simultaneous nuclear segmentation and classification☆72Nov 21, 2022Updated 3 years ago
- Read and write life sciences file formats☆142Jun 12, 2025Updated 8 months ago
- Coincides with blogpost for using geojson and shapely☆33Nov 16, 2020Updated 5 years ago
- Deep Learning Inferred Multiplex ImmunoFluorescence for IHC Image Quantification (https://deepliif.org) [Nature Machine Intelligence'22, …☆239Feb 4, 2026Updated 3 weeks ago
- Study sheet for the TOEFL iBT☆14Jan 20, 2024Updated 2 years ago
- Use streaming to train whole-slides images with single image-level labels, by reducing GPU memory requirements with 99%.☆78Jan 9, 2023Updated 3 years ago
- PyTorch implementation of GCMAE☆38Jul 8, 2024Updated last year
- ☆93Nov 5, 2025Updated 3 months ago
- ☆13Jul 29, 2022Updated 3 years ago
- Multi-scale CNNs for histopathology image segmentation☆11Feb 28, 2021Updated 5 years ago
- Synthetic histology using GANs, for deep learning model explainability and trainee education.☆16Jan 5, 2024Updated 2 years ago
- Repo for the CZI Imaging Team's napari plugin Alfa Cohort collaboration☆11May 14, 2021Updated 4 years ago
- Integrated pipeline for multiplexed image analysis☆102Jan 7, 2026Updated last month
- Histopathology Image Analysis☆93Jul 6, 2023Updated 2 years ago
- AI-based pathology predicts origins for cancers of unknown primary - Nature☆179Nov 1, 2021Updated 4 years ago
- shrimPy: Smart High-throughput Robust Imaging & Measurement in Python☆13Updated this week
- 点云配准入门知识☆10Nov 14, 2019Updated 6 years ago
- Calculation of the Ripley K (spatial statistics) value in python☆13Sep 29, 2025Updated 5 months ago
- ITK IO for images stored in OME-Zarr format.☆11Sep 4, 2025Updated 5 months ago
- ☆13Jan 22, 2026Updated last month