computational-cell-analytics / patho-sam
Segment Anything for Histopathology
☆21Updated this week
Alternatives and similar repositories for patho-sam:
Users that are interested in patho-sam are comparing it to the libraries listed below
- Piecewise alignment for layers of mosaics☆23Updated 3 months ago
- QuPath extension for Segment Anything Model (SAM)☆103Updated 3 weeks ago
- multimodal whole slide image registration in a graph structure☆82Updated 8 months ago
- TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUma…☆51Updated 2 months ago
- ☆152Updated this week
- Transfer trained StarDist models across imaging modalities☆3Updated 6 months ago
- QuPath extension for Cellsparse☆18Updated 3 months ago
- ☆31Updated last year
- an extension that wraps a Cellpose environment such that WSI can be analyzed using Cellpose through QuPath.☆67Updated 6 months ago
- Codebase for "A Foundation Model for Cell Segmentation"☆73Updated this week
- QuPath extension to work with WSInfer - https://wsinfer.readthedocs.io/☆24Updated last month
- QuST: QuPath Extension for Integrative Whole Slide Image and Spatial Transcriptomics Analysis☆15Updated 3 months ago
- QuPath extension to interactively align images☆22Updated 3 months ago
- Integrated pipeline for multiplexed image analysis☆85Updated this week
- List of QuPath scripts for alignment and stain deconvolution of whole-slide histology images☆25Updated 2 years ago
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆29Updated 2 months ago
- The AstroPath Pipeline was developed to process whole slide multiplex immunofluorescence data from microscope to database at single cell …☆18Updated last year
- PAthological QUpath Obsession - QuPath and Python conversations☆113Updated 3 months ago
- CODEX data processing code☆12Updated 2 months ago
- Lab for quantitative bioimage analysis experiments in Python☆11Updated 2 months ago
- ☆20Updated last year
- Cloud-based data annotation tools for biological images☆79Updated last year
- ☆23Updated last year
- 🔥 🚀 Blazingly fast pipeline for patch-based classification in whole slide images☆68Updated 8 months ago
- Machine learning for Analysis of Proteomics in Spatial biology - Nature Communications☆51Updated last year
- Unsupervised Instance Segmentation in Microscopy☆23Updated 11 months ago
- Whole Slide image (WSI) conversion for brightfield histology images☆36Updated 3 weeks ago
- Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data☆41Updated 8 months ago
- version 1 scripts for CODA☆43Updated 10 months ago
- The official QuPath extension for InstanSeg☆16Updated this week