Individual skill
pathml
Full-featured computational pathology toolkit. Use for advanced WSI analysis including multiplexed immunofluorescence (CODEX, Vectra), nucleus segmentation, tissue graph construction, and ML model training on pathology data. Supports 160+ slide formats. For simple tile extraction from H&E slides, histolab may be simpler.
skills/07-临床医学与精准医疗/pathml/SKILL.md
Source commit df5a498a81e0f9c8f79d814446dcf9e9b8f68888
What was checked
- Matches the observed repository HEAD
- Yes
- Scanner rules are current
- Yes
- Repository scan complete
- No
- Skill scan complete
- No
- Observed behavior
- Network or broad shell
- Last checked
- Nov 10, 2026
These are observations at the recorded commit, not a guarantee of safety. Review the source before running it.
Install this skill
Choose an agent in your Stack or copy a command below. Commands fetch the pinned commit and copy only this skill directory. Existing destinations are refused. Copying a command does not install anything.
An install command is unavailable: current rules, complete repository and skill scans, an eligible behavior level and a permitted license are required.
Repository context
- Repository stars (not skill ratings)
- 1,029
- Repository last updated
- Jul 20, 2026
- License
- MIT
Observed agent integration: No specific integration evidence. Standard SKILL.md installation does not imply verified compatibility.
- academic Repository topic
- ai-assistant Repository topic
- arxiv Repository topic
- claude-code Repository topic
- google-scholar Repository topic
- literature-review Repository topic
- openclaw Repository topic
- paper-search Repository topic
- pubmed Repository topic
- skill Repository topic
- data Derived category
Files and excerpt
File metadata and permitted, redacted excerpts come from the recorded scan. Source links are pinned to that commit.
Browse files
SKILL.mdcore · 7,367 bytesSKILL.mdcore · 7,367 bytesSKILL.mdcore · 7,367 bytesreferences/data_management.mddoc · 19,018 bytesreferences/graphs.mddoc · 16,726 bytesreferences/image_loading.mddoc · 12,146 bytesreferences/machine_learning.mddoc · 19,946 bytesreferences/multiparametric.mddoc · 18,199 bytesreferences/preprocessing.mddoc · 18,209 bytes
Read excerpt
# PathML
## Overview
PathML is a comprehensive Python toolkit for computational pathology workflows, designed to facilitate machine learning and image analysis for whole-slide pathology images. The framework provides modular, composable tools for loading diverse slide formats, preprocessing images, constructing spatial graphs, training deep learning models, and analyzing multiparametric imaging data from technologies like CODEX and multiplex immunofluorescence.
## When to Use This Skill
Apply this skill for:
- Loading and processing whole-slide images (WSI) in various proprietary formats
- Preprocessing H&E stained tissue images with stain normalization
- Nucleus detection, segmentation, and classification workflows
- Building cell and tissue graphs for spatial analysis
- Training or deploying machine learning models (HoVer-Net, HACTNet) on pathology data