Data Science & ML Agent Skills

Embedding Optimization & Strategies

Implements high-performance embedding pipelines and vector search strategies for RAG applications.

Genomic Tools and Algorithms in Rust (Gtars)

Simplifies high-performance genomic interval analysis and machine learning preprocessing using Rust-powered toolsets.

Quantitative Risk Metrics

Calculates comprehensive portfolio risk metrics including VaR, CVaR, and risk-adjusted return ratios for quantitative trading strategies.

PDB Structural Biology Database

Accesses and retrieves 3D protein and nucleic acid structures from the RCSB PDB for structural biology and drug discovery research.

Backtesting Frameworks

Builds robust, production-grade backtesting systems for trading strategies with specialized handling for look-ahead bias and transaction costs.

Pysam Genomic Data Processing

Processes and analyzes high-throughput sequencing data including SAM, BAM, VCF, and FASTA files using a Pythonic interface to htslib.

KEGG Scientific Database Access

Accesses the KEGG REST API for biological pathway analysis, gene mapping, and metabolic network research.

PubMed Database Access

Facilitates advanced biomedical literature searches and programmatic data retrieval from the PubMed database using MeSH terms and E-utilities.

Spark Performance Optimizer

Optimizes Apache Spark jobs using advanced partitioning, memory management, and shuffle tuning patterns.

Histolab Pathology Processing

Automates digital pathology workflows by processing whole slide images, detecting tissue regions, and extracting informative tiles for deep learning pipelines.

Vector Index Tuning & Optimization

Optimizes vector database performance by tuning HNSW parameters, quantization strategies, and scaling configurations for high-efficiency similarity search.

Biomni Biomedical Research Agent

Executes autonomous multi-step biomedical research tasks including genomics analysis, drug discovery, and CRISPR design.

AC Memory Manager

Persists knowledge and learned patterns across autonomous coding sessions using Graphiti-based memory management.

NeuroKit2 Biosignal Processing

Processes and analyzes complex physiological signals including ECG, EEG, EDA, and respiratory patterns for research and clinical applications.

Gemini CLI Integration

Integrates Google’s Gemini AI capabilities into Claude Code for multimodal tasks, advanced code analysis, and automated tool execution.

MarkItDown Document Converter

Converts diverse file formats including PDFs, Office documents, and media into LLM-optimized Markdown while preserving structural integrity.

LLM Evaluation Framework

Implement and automate comprehensive evaluation strategies for Large Language Model applications using metrics, human feedback, and LLM-as-judge patterns.

ETE Toolkit for Phylogenetics

Manipulates, analyzes, and visualizes phylogenetic and hierarchical trees for genomic research and clustering analysis.

Transformers for AI & ML

Integrates Hugging Face Transformers for advanced natural language processing, computer vision, and audio tasks.

ClinicalTrials.gov Explorer

Queries the ClinicalTrials.gov API to search, filter, and analyze global clinical study data for medical research and patient matching.

deepTools NGS Analysis

Facilitates high-throughput sequencing data analysis, visualization, and quality control for genomics workflows.

BioServices Bioinformatics

Accesses over 40 bioinformatics web services and databases for biological data retrieval and analysis within Python workflows.

Statsmodels Statistical Analysis

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

Statistical Analysis Toolkit

Performs comprehensive statistical hypothesis testing, regression analysis, and Bayesian modeling with automated assumption checking and APA-style reporting.

LangChain & LangGraph Architecture

Designs and implements sophisticated LLM applications using LangChain 1.x and LangGraph for advanced agentic workflows and state management.

ML Pipeline Workflow

Builds and orchestrates end-to-end MLOps pipelines from data preparation through production model deployment.

Advanced Excel & Spreadsheet Manager

Automates the creation, editing, and analysis of complex Excel spreadsheets with support for dynamic formulas and financial modeling standards.

Scientific Excel & Data Toolkit

Automates the creation, editing, and analysis of professional-grade Excel spreadsheets with dynamic formulas and industry-standard formatting.

XLSX Spreadsheet Expert

Automates professional spreadsheet creation, financial modeling, and data analysis with dynamic formulas and industry-standard formatting.

LangGraph v1 & LangChain Assistant

Facilitates the development and migration of Python-based AI agents using LangGraph v1 and LangChain v1 standards.