Data Science & ML Agent Skills

ClinicalTrials.gov Database

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

ClinVar Database

Accesses and interprets the NCBI ClinVar archive to identify genomic variant clinical significance and pathogenicity classifications.

deepTools NGS Analysis

Processes and analyzes high-throughput sequencing data to generate publication-quality visualizations and quality control metrics for genomics research.

ClinVar Database Explorer

Queries and interprets genomic variant data from the NCBI ClinVar database to support clinical genetics and research workflows.

DrugBank Database Integration

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

ClinVar Genomic Database Assistant

Interfaces with NCBI ClinVar to query, interpret, and process human genetic variant clinical significance data for genomic medicine.

deepTools NGS Analysis

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

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.

ML Pipeline Workflow

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

BioServices Bioinformatics Toolkit

Provides unified Python access to over 40 bioinformatics web services and databases for integrated biological data analysis.

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.

ML Pipeline Workflow

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

COBRApy Metabolic Modeling

Performs constraint-based reconstruction and analysis of metabolic models using Python for systems biology and metabolic engineering.

COSMIC Cancer Database

Accesses the Catalogue of Somatic Mutations in Cancer (COSMIC) to retrieve somatic mutations, gene fusions, and mutational signatures for oncology research.

PyDESeq2 Analysis

Performs differential gene expression analysis on bulk RNA-seq data using the PyDESeq2 framework.

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.

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.

arXiv Search

Searches the arXiv preprint repository for scholarly articles across various scientific and technical domains.

Benchling Integration

Integrates Benchling’s R&D platform with Claude to automate life sciences workflows, manage biological registries, and streamline lab data operations.

Flow Nexus Neural Networks

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

ClinVar Database Integration

Queries and interprets NCBI ClinVar data for human genetic variant pathogenicity and clinical significance.

RDKit Cheminformatics

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

Excel Data Analysis & Reporting

Automates Excel spreadsheet analysis, data manipulation, and visual reporting using Python-based data science libraries.