Data Science & ML Agent Skills

ClinicalTrials.gov Data Integrator

Queries and analyzes clinical trial data from the official ClinicalTrials.gov API v2 for research and patient matching.

Denario AI Research Orchestrator

Automates end-to-end scientific research workflows from initial data analysis and hypothesis generation to the production of publication-ready LaTeX manuscripts.

ClinicalTrials.gov Database

Queries the ClinicalTrials.gov API to search for medical studies, retrieve trial details, and export structured clinical research data.

DrugBank Database Integration

Accesses and analyzes comprehensive pharmaceutical data from DrugBank, including drug properties, interactions, targets, and chemical structures.

Hypogenic Research Assistant

Automates scientific hypothesis generation and testing by combining observational data with literature-based insights using large language models.

Data Visualization Plots

Generates publication-quality scientific visualizations and data plots locally using Python's Matplotlib and Seaborn libraries.

RAG Implementation Pro

Builds high-performance Retrieval-Augmented Generation systems using vector databases, semantic search, and advanced retrieval patterns.

Ensembl Genome Database

Queries the Ensembl REST API to retrieve gene annotations, sequences, variants, and comparative genomics data for over 250 species.

deepTools NGS Analysis

Automates Next-Generation Sequencing (NGS) data processing, quality control, and publication-quality visualization.

ML Pipeline Workflow

Builds end-to-end MLOps pipelines for data preparation, model training, validation, and production deployment.

AgentDB Vector Search

Implement high-performance semantic search and vector storage for intelligent document retrieval and RAG systems.

Flow Nexus Neural Networks

Trains and deploys sophisticated neural network architectures across distributed E2B sandbox environments.

DrugBank Database Analysis

Accesses and analyzes comprehensive pharmaceutical data from DrugBank including drug properties, interactions, and molecular structures.

Chroma Vector Database

Integrates the open-source embedding database to build AI-native applications with semantic search and retrieval-augmented generation (RAG) capabilities.

DiffDock Molecular Docking

Predicts high-accuracy 3D protein-ligand binding poses using diffusion-based deep learning for structure-based drug design.

ToolUniverse Scientific Workflows

Automates complex scientific research workflows and tool discovery across bioinformatics, genomics, and drug discovery domains.

ML Pipeline Workflow Orchestrator

Builds end-to-end MLOps pipelines from data preparation and model training to production deployment and monitoring.

ML Pipeline Workflow

Builds end-to-end MLOps pipelines from data preparation through model training, validation, and production deployment.

Denario Scientific Research Automation

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

LLM Performance Evaluation

Implements comprehensive evaluation strategies for LLM applications using automated metrics, human feedback, and benchmarking.

Reactome Database Integration

Integrates Reactome's open-source curated pathway database for biological pathway analysis, gene mapping, and systems biology research.

DeepChem Molecular ML

Streamlines molecular machine learning workflows for drug discovery, property prediction, and graph neural network implementation.

Scientific Hypothesis Generation

Generates rigorous, testable scientific hypotheses and detailed experimental designs based on observations and existing literature.

PDF Report Generator

Generates professional, multi-page PDF reports with formatted text, tables, and embedded visualizations using the ReportLab library.

Matchms Mass Spectrometry Analysis

Processes and analyzes mass spectrometry data using Python-based spectral similarity metrics and metadata harmonization.

ENA Bioinformatics Database

Interfaces with the European Nucleotide Archive to programmatically retrieve DNA/RNA sequences, raw reads, and genome metadata.

Flow Nexus Neural Networks

Trains and deploys distributed neural networks within secure E2B sandbox environments using the Flow Nexus framework.

ESM Protein Design & Modeling

Enables advanced protein engineering, sequence generation, and structure prediction using Evolutionary Scale Modeling.

PDF Processing Toolkit

Simplifies PDF manipulation, data extraction, and document generation using industry-standard Python libraries and CLI tools.

RDKit Cheminformatics

Provides comprehensive cheminformatics capabilities for molecular analysis, property calculation, and 3D coordinate generation.