histolab

histolab is a skill for Claude Code, Codex from foryourhealth111-pixel/Vibe-Skills. It costs 62 tokens per session (4,564 once invoked), scanned A, a copy of histolab, Apache-2.0.

A lightweight toolkit for processing whole-slide images used in digital pathology. It detects tissue, cuts gigapixel slides into smaller tiles, and prepares H&E images for analysis.

In plain words
What is it for?
Use it for tissue detection, tile extraction, stain normalization, and basic dataset preparation from whole-slide images.
Why use it?
It makes very large pathology slides easier to inspect and convert into manageable training or analysis data.

Skill for Claude CodeCodex

Written for no agent in particular: nothing here depends on one.

Good fit Use it for tissue detection, tile extraction, stain normalization, and basic dataset preparation from whole-slide images.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/foryourhealth111-pixel/vibe-skills/histolab
About the project

Vibe-Skills is a collection and routing system that helps AI agents discover, select, and coordinate specialized skills for completing tasks. It is intended for agents that need to organize workflows across many installed capabilities. The catalogue entries are skills and an agent belonging to this system.

foryourhealth111-pixel/Vibe-Skills · 3,252 stars · on GitHub

Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

Any agent
npx skills add foryourhealth111-pixel/Vibe-Skills --skill histolab
Clone the repo
git clone --depth 1 https://github.com/foryourhealth111-pixel/Vibe-Skills

Made for: Claude Code, Codex.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

agentmods badge for histolab

README.md
[![agentmods](https://agentmods.dev/badge/skills/foryourhealth111-pixel/vibe-skills/histolab/github.svg)](https://agentmods.dev/skills/foryourhealth111-pixel/vibe-skills/histolab)
Your own site
<a href="https://agentmods.dev/skills/foryourhealth111-pixel/vibe-skills/histolab"><img src="https://agentmods.dev/badge/skills/foryourhealth111-pixel/vibe-skills/histolab/github.svg" alt="Measured on agentmods" height="20"></a>

Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.

agentmods 80×15 button for histolab

Your own site · 80×15
<a href="https://agentmods.dev/skills/foryourhealth111-pixel/vibe-skills/histolab"><img src="https://agentmods.dev/badge/skills/foryourhealth111-pixel/vibe-skills/histolab.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 62 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 4,564 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe.
Origin 98% copy Near-identical to another mod in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5.1 $0.00062 $0.04564
Opus 5 $0.00031 $0.02282
Sonnet 5 $0.00012 $0.00913
Haiku 4.5 $0.00006 $0.00456

Measured 9d ago against content hash a6acdb034be5, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-12, from the pricing page.

Security

Grade A, and why

histolab scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 9d ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

Origin

This is a copy

98% identical to histolab — 8 lines differ, which has more behind it and is treated as the original. This page carries a canonical link to it rather than competing with it.

bundled/skills/histolab/SKILL.md · 680 lines

How it starts

The opening of the file, as written. The whole thing — 680 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Histolab

Overview

Histolab is a Python library for processing whole slide images (WSI) in digital pathology. It automates tissue detection, extracts informative tiles from gigapixel images, and prepares datasets for deep learning pipelines. The library handles multiple WSI formats, implements sophisticated tissue segmentation, and provides flexible tile extraction strategies.

Routing Boundary

Use this skill for basic WSI tile extraction, tissue detection, H&E tile preprocessing, and quick histolab dataset preparation. Full computational pathology workflows, PathML pipelines, nucleus segmentation, spatial pathology, multiplex pathology, DICOM/IDC retrieval, OMERO server work, and generic image-processing tasks are outside this skill.

Installation

uv pip install histolab

Quick Start

Basic workflow for extracting tiles from a whole slide image:

from histolab.slide import Slide
from histolab.tiler import RandomTiler

# Load slide
slide = Slide("slide.svs", processed_path="output/")

# Configure tiler
tiler = RandomTiler(
    tile_size=(512, 512),
    n_tiles=100,
    level=0,
    seed=42
)

# Preview tile locations
tiler.locate_tiles(slide, n_tiles=20)

# Extract tiles
tiler.extract(slide)

Core Capabilities

1. Slide Management

Load, inspect, and work with whole slide images in various formats.

Common operations:

  • Loading WSI files (SVS, TIFF, NDPI, etc.)
  • Accessing slide metadata (dimensions, magnification, properties)
  • Generating thumbnails for visualization
  • Working with pyramidal image structures
  • Extracting regions at specific coordinates

Key classes: Slide

Reference: references/slide_management.md contains comprehensive documentation on:

  • Slide initialization and configuration
  • Built-in sample datasets (prostate, ovarian, breast, heart, kidney tissues)
  • Accessing slide properties and metadata
  • Thumbnail generation and visualization
  • Working with pyramid levels
  • Multi-slide processing workflows

Read the full file on GitHub · 680 lines

Files

What ships with it

5 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. 9d ago First seen · 680 lines · 62 tokens per session scan A a6acdb034be5

Subscribe to this mod's changes

histolab is a skill published in the GitHub repository foryourhealth111-pixel/Vibe-Skills (3,252 stars, last pushed 12d ago), licensed Apache-2.0. It adds 62 tokens to every session and 4,564 once invoked, about $0.0003 per session on Opus 5. A static security scan graded it A with 0 findings. It is 98% identical to histolab, differing in 8 lines, and is treated as a copy.

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