Data Science & ML Agent Skills

Histolab Digital Pathology

Processes whole slide images (WSI) for digital pathology by automating tissue detection and tile extraction for machine learning pipelines.

LaminDB Biological Data Management

Manage, validate, and trace biological datasets using a FAIR-compliant data framework and standardized biological ontologies.

Medicinal Chemistry & Molecular Filtering

Applies industry-standard medicinal chemistry rules and structural alerts to filter and prioritize molecular compound libraries.

PyOpenMS Mass Spectrometry Analysis

Processes and analyzes mass spectrometry data for proteomics and metabolomics research using the OpenMS framework.

CocoIndex AI Data Framework

Builds high-performance, incremental AI data transformation pipelines for vector databases and knowledge graphs.

PyHealth AI Toolkit

Develops, tests, and deploys healthcare-specific machine learning models using clinical data and electronic health records.

Astropy for Claude Code

Streamlines astronomical data analysis and astrophysical research using the core Astropy Python ecosystem.

Excel & Financial Modeling

Automates the creation, analysis, and maintenance of professional-grade Excel spreadsheets and financial models with dynamic formulas.

PathML Pathology Analysis

Analyzes whole-slide pathology images and multiparametric data using specialized computational workflows and machine learning.

QuTiP Quantum Mechanics

Simulates and analyzes closed and open quantum systems using the QuTiP framework in Python.

Denario Scientific Research

Automates the entire scientific research lifecycle from data analysis and hypothesis generation to publication-ready LaTeX manuscripts.

NetworkX Graph Analysis

Analyzes and visualizes complex networks and graph data structures using the comprehensive NetworkX Python toolkit.

Vaex Big Data Analysis

Processes and visualizes massive tabular datasets with billions of rows using memory-efficient out-of-core DataFrames.

FlowIO Flow Cytometry Handler

Parses and generates Flow Cytometry Standard (FCS) files, converting biological event data into NumPy arrays and DataFrames for scientific analysis.

Matchms Spectrometry Analysis

Processes and analyzes mass spectrometry data using Python for metabolomics and chemical identification.

ESM Protein Design & Analysis

Provides a comprehensive toolkit for protein language modeling, including generative design, structure prediction, and high-quality sequence embeddings.

Qdrant Vector Database Integration

Integrates Qdrant vector database with Java applications using Spring Boot and LangChain4j for high-performance semantic search and RAG.

Qiskit Quantum Computing

Accelerates quantum circuit development, hardware transpilation, and algorithm execution using the industry-standard Qiskit SDK.

D3.js Data Visualisation

Builds interactive, bespoke data visualisations with fine-grained SVG control using the d3.js library.

DiffDock Molecular Docking

Performs state-of-the-art diffusion-based molecular docking to predict 3D binding poses of ligands to protein targets.

Biopython Molecular Biology

Facilitates computational molecular biology tasks including sequence manipulation, NCBI database access, and structural bioinformatics analysis.

Adaptyv Protein Validation

Automates protein testing and validation by connecting computational designs to cloud-based laboratory experiments and optimization tools.

ETE Toolkit Phylogenetic Analysis

Manipulates, analyzes, and visualizes phylogenetic trees with advanced support for evolutionary event detection and NCBI taxonomy integration.

Statsmodels Statistical Modeling

Performs rigorous statistical modeling, econometric analysis, and hypothesis testing using the Python statsmodels library.

Prompt Engineering Patterns

Implements advanced prompt design techniques to maximize LLM performance, reliability, and token efficiency across all interactions.

deepTools NGS Analysis

Processes and analyzes high-throughput sequencing data (NGS) to generate publication-quality visualizations and quality control metrics.

Datamol Cheminformatics

Simplifies molecular cheminformatics workflows by providing a Pythonic wrapper around RDKit with sensible defaults and parallel processing.

Arboreto GRN Inference

Infers gene regulatory networks from transcriptomics data using scalable machine learning algorithms like GRNBoost2 and GENIE3.

NeuroKit2 Biosignal Processing

Analyzes and processes physiological signals including ECG, EEG, and EDA using the comprehensive NeuroKit2 Python library.

PyLabRobot Automation

Automates laboratory workflows and hardware control through a unified, hardware-agnostic Python interface.