software-security

omero-integration

K-Dense-AI

Microscopy data management platform. Access images via Python, retrieve datasets, analyze pixels, manage ROIs/annotations, batch processing, for high-content screening and microscopy workflows.

context-initialization

K-Dense-AI

Always Auto-invoked skill that creates/updates workspace AGENTS.md to instruct the agent to always search for existing skills before attempting any scientific task.

dask

K-Dense-AI

Parallel/distributed computing. Scale pandas/NumPy beyond memory, parallel DataFrames/Arrays, multi-file processing, task graphs, for larger-than-RAM datasets and parallel workflows.

pydicom

K-Dense-AI

Python library for working with DICOM (Digital Imaging and Communications in Medicine) files. Use this skill when reading, writing, or modifying medical imaging data in DICOM format, extracting pixel data from medical images (CT, MRI, X-ray, ultrasound), anonymizing DICOM files, working with DICOM metadata and tags, converting DICOM images to other formats, handling compressed DICOM data, or processing medical imaging datasets. Applies to tasks involving medical image analysis, PACS systems, radiology workflows, and healthcare imaging applications.

pathml

K-Dense-AI

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.

pyopenms

K-Dense-AI

Mass spectrometry toolkit (OpenMS Python). Process mzML/mzXML, peak picking, feature detection, peptide ID, proteomics/metabolomics workflows, for LC-MS/MS analysis.

flowio

K-Dense-AI

Parse FCS (Flow Cytometry Standard) files v2.0-3.1. Extract events as NumPy arrays, read metadata/channels, convert to CSV/DataFrame, for flow cytometry data preprocessing.

git-advanced-workflows

wshobson

Master advanced Git workflows including rebasing, cherry-picking, bisect, worktrees, and reflog to maintain clean history and recover from any situation. Use when managing complex Git histories, collaborating on feature branches, or troubleshooting repository issues.

uv-package-manager

wshobson

Master the uv package manager for fast Python dependency management, virtual environments, and modern Python project workflows. Use when setting up Python projects, managing dependencies, or optimizing Python development workflows with uv.

algorithmic-art

anthropics

Creating algorithmic art using p5.js with seeded randomness and interactive parameter exploration. Use this when users request creating art using code, generative art, algorithmic art, flow fields, or particle systems. Create original algorithmic art rather than copying existing artists' work to avoid copyright violations.

Use llamactl - a CLI tool for LlamaAgents

run-llama

Use llamactl to initialize, locally preview, deploy and manage LlamaIndex workflows as LlamaAgents. Required llama-index-workflows and llamactl to be installed in the environment.

moai-domain-database

modu-ai

MoAI - Agentic Development Kit