qupath-pathology
CommunityAutomate digital pathology workflows with QuPath.
Authorpradyumnasagar
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This Skill automates various tasks in digital pathology, including whole-slide image import, annotation, and analysis, using the QuPath platform.
Core Features & Use Cases
- Whole-Slide Image Processing: Import, annotate, and quantify images from various file formats.
- Cell Detection and Segmentation: Detect and classify cells using built-in or deep-learning methods.
- Pixel Classification: Train and apply pixel classification models to identify tissue types.
- Workflow Automation: Build and execute workflows for reproducible analysis.
- Use Case: Automate the analysis of a whole-slide image of a tumor sample, including segmentation, detection, and quantification of cancer cells.
Quick Start
Use the qupath-pathology skill to analyze the 'tumor_sample.svs' slide and generate a report.
Dependency Matrix
Required Modules
qupathpythonpytesseractnumpyscipy
Components
scriptsreferencesassets
💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: qupath-pathology Download link: https://github.com/pradyumnasagar/open-research-skills/archive/main.zip#qupath-pathology Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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