Data Science & ML Agent Skills

Scientific Peer Review Toolkit

Conducts systematic, high-rigor peer reviews of scientific manuscripts and grant proposals across all major research disciplines.

Scholar Evaluation & Research Assessment

Evaluates research papers and scholarly work using the ScholarEval framework to provide structured quality assessments and actionable feedback.

ClinicalTrials.gov Search & Analytics

Facilitates programmatic access to the ClinicalTrials.gov API v2 to search, filter, and export global clinical study data for research and patient matching.

Zarr Python Scientific Computing

Manages large-scale N-dimensional arrays with chunking, compression, and cloud-native storage integration.

TorchDrug Scientific Skill

Accelerates drug discovery and molecular science workflows using graph neural networks and PyTorch-based modeling.

FDA Database Access

Accesses and analyzes comprehensive FDA regulatory data for drugs, medical devices, and food safety through the openFDA API.

ClinVar Database Integration

Access and analyze genomic variant clinical significance data from NCBI's ClinVar archive.

PDB Structural Biology & Drug Discovery

Accesses and analyzes RCSB Protein Data Bank (PDB) structures, metadata, and 3D coordinates for structural biology and drug discovery research.

ClinPGx Pharmacogenomics Database

Accesses comprehensive pharmacogenomics data including gene-drug interactions, CPIC guidelines, and allele functions for precision medicine.

Excel & Data Analysis Toolkit

Creates, edits, and analyzes Excel spreadsheets with production-grade formulas, formatting, and scientific visualizations.

Statistical Analysis

Performs comprehensive statistical testing, hypothesis verification, and research data modeling using Python's scientific ecosystem.

QuTiP Quantum Simulations

Simulates and analyzes closed and open quantum systems using the Quantum Toolbox in Python (QuTiP).

PubChem Database Explorer

Queries the PubChem database to retrieve chemical properties, perform structure searches, and access bioactivity data for over 110 million compounds.

Pysam Genomic Toolkit

Reads, manipulates, and writes genomic datasets including BAM, VCF, and FASTA files using a Pythonic interface to htslib.

GWAS Catalog Database Search

Queries the NHGRI-EBI GWAS Catalog for SNP-trait associations, genetic variants, and summary statistics to support genetic epidemiology and polygenic risk score development.

Scientific Schematics & Diagrams

Generates publication-quality scientific diagrams and architectural schematics using AI-driven iterative refinement and quality auditing.

Scikit-bio (Biological Data Analysis)

Performs comprehensive biological data analysis including sequence manipulation, phylogenetics, and microbial ecology statistics.

Reactome Database

Facilitates systems biology research by querying the Reactome REST API for pathway analysis, gene mapping, and molecular interactions.

LabArchives Integration

Automates electronic lab notebook management through the LabArchives REST API for research documentation, data backups, and tool integration.

OMERO Microscopy Integration

Integrates OMERO microscopy data management with Python for advanced image analysis, metadata handling, and automated screening workflows.

Clinical Decision Support Documenter

Generates publication-ready clinical decision support documents and biomarker-stratified cohort analyses for pharmaceutical and clinical research.

NCBI GEO Genomics Assistant

Accesses and processes NCBI Gene Expression Omnibus (GEO) data for transcriptomics and functional genomics research.

Ensembl Genome Database Access

Facilitates automated queries to the Ensembl REST API for gene annotation, sequence retrieval, and comparative genomic analysis across 250+ species.

PyOpenMS Mass Spectrometry Analysis

Analyzes mass spectrometry data using Python bindings for OpenMS to process complex proteomics and metabolomics workflows.

PyTorch Geometric (PyG) Graph Learning

Develop and train Graph Neural Networks using PyTorch Geometric for node classification, link prediction, and molecular modeling.

HMDB Scientific Database

Accesses the Human Metabolome Database to retrieve chemical, clinical, and spectroscopic data for over 220,000 metabolites.

STRING Database Analysis

Accesses and analyzes protein-protein interaction networks and functional enrichment data using the STRING API.

ZINC Chemical Database

Accesses the ZINC database of 230M+ purchasable compounds for virtual screening, drug discovery, and molecular docking studies.

PyTorch Lightning

Streamlines deep learning development by organizing PyTorch code into scalable, modular structures for automated training and multi-GPU orchestration.

Open Targets Database

Queries the Open Targets Platform to identify therapeutic drug targets and analyze disease-target associations using human genetics and omics data.