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By k-dense-ai

histolab

k-dense-ai

Extract and prepare WSI tiles for analysis.

digital pathology

What it does

Extract informative tiles from whole-slide images and prepare them for analysis.

When to use it

Use it for basic slide processing, tissue detection, tile extraction, and H&E stain normalization; use pathml for advanced spatial proteomics, multiplexed imaging, or deep learning pipelines.

How to use it

Give it whole-slide image files; it returns previewed and extracted tiles in the configured processed output directory.

What you provide

  • whole slide image files
  • Your files

Uses


Access · 5

This skill

OpenSlide system libraries

Execute

Installs OpenSlide libraries

histolab

Execute

Installs histolab

pooch

Execute

Installs pooch

TCGA sample slides

Write

Downloads sample slides

What you need · 3

Requires Python 3.8–3.11 for histolab 0.7.0.

OpenSlide system libraries must be installed before histolab.

Runs on Linux or macOS; Windows is not supported as of histolab 0.7.0.


About this skill

Visibility
Public
Repository
k-dense-ai/scientific-agent-skills
Created
Oct 8, 2026
Updated
Oct 8, 2026
Files
8