pathml

13,835 stars 1,200 forks Updated Dec 26, 2025

66.7

Computational pathology toolkit for analyzing whole-slide images (WSI) and multiparametric imaging data. Use this skill when working with histopathology slides, H&E stained images, multiplex immunofluorescence (CODEX, Vectra), spatial proteomics, nucleus detection/segmentation, tissue graph construction, or training ML models on pathology data. Supports 160+ slide formats including Aperio SVS, NDPI, DICOM, OME-TIFF for digital pathology workflows.

Commands Marketplace

#spatial#spatial analysis#Issue#CODEX#processing

Also in: machine learning ci cd data analysis

Third-Party Skill: Review the code before installing. Skills execute in your AI assistant's environment and can access your files. Learn more about security

Installation

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Claude Code (CLI) Fast

skilz install davila7_claude-code-templates/pathml

OpenCode (CLI) Fast

skilz install davila7_claude-code-templates/pathml --agent opencode

OpenAI Codex (CLI) Native

skilz install davila7_claude-code-templates/pathml --agent codex

Gemini CLI (Project) Project

skilz install davila7_claude-code-templates/pathml --agent gemini

First time? Install Skilz: pip install skilz

Works with 14 AI coding assistants

Cursor, Aider, Copilot, Windsurf, Qwen, Kimi, and more...

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For Claude Desktop Easy

Download Skill ZIP

Extract and copy to ~/.claude/skills/ then restart Claude Desktop

Manual Installation

1. Clone the repository:

git clone https://github.com/davila7/claude-code-templates

2. Copy the skill directory:

Owner: davila7
Repository: claude-code-templates
Stars: 13,835
Forks: 1,200
Type: Technical
Meta-Domain: development
Primary Domain: github
Sub-Domain: skill use
Skill Size: 109.1 KB
Files: 7
Quality Score: 66.7

AI-Detected Topics

Extracted using NLP analysis

spatial spatial analysis Issue CODEX processing

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