Use Bio.Entrez to access NCBI databases (e.g., PubMed/GenBank) for searching, fetching summaries, and downloading records when your workflow needs to call the NCBI E-utilities API over the network.

Comprehensive analytics tool for forecasting breakthrough therapeutic technologies by integrating multi-dimensional data sources including clinical development pipelines, intellectual property landscapes, and capital mar.

Comprehensive citation management for academic research; use when you need to discover papers (Google Scholar/PubMed), extract/verify metadata (DOI/PMID/arXiv/URL), and produce validated, clean BibTeX for manuscripts.

Access COSMIC to download mutation datasets, query Cancer Gene Census, and retrieve mutational signatures when your genomic analysis requires curated somatic mutation resources.

Programmatic access to DrugBank drug and target data; use when you need to download, parse, and analyze DrugBank XML for properties, interactions, pathways, and pharmacology.

Access the European Nucleotide Archive (ENA) via REST APIs and FTP/Aspera to search and retrieve sequences, raw reads (FASTQ), assemblies, and metadata when you have accession IDs or need metadata-driven discovery for genomics pipelines.

Access the Human Metabolome Database (HMDB) to search metabolites by name/structure/ID and extract chemical/biological/clinical fields when you need metabolomics research data or automated HMDB XML mining.

Produce a structured close-reading report from a paper's full PDF-to-Markdown text (with `## Page XX` pagination and image references) when you need to systematically extract background, research questions, methods, results, limitations, and reproducible experimental details.

Rapidly skim and summarize academic papers (default:PDF-to-Markdown full text with `## Page XX` pagination and image references) and output a structured extensive-reading summary in Markdown when you need to quickly understand research questions, methods, key results, conclusions, and decide whether intensive reading is worthwhile.

Access the RCSB Protein Data Bank (PDB) to search, download, and programmatically retrieve 3D macromolecular structures and metadata; use when you need structure discovery (text/sequence/3D similarity) or automated structural data ingestion for structural biology and drug discovery workflows.

Download academic papers from open-access sources when the user provides a DOI/arXiv ID or requests a keyword-based paper search, and return the saved PDF path.

Access the ZINC (230M+ purchasable compounds) database when you need to look up compounds by ZINC ID/SMILES, run similarity/analog searches, or download 3D ready-to-dock structures for virtual screening and drug discovery.

Complete workflow for generating academic research posters from PDF literature; use when you need to extract paper content from PDFs and produce a LaTeX-based poster (beamerposter/tikzposter/baposter) with mandatory figure generation and a final rendered HTML deliverable.

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Interpret figures in academic papers and their captions when the input is a PDF-to-Markdown document with page markers and image links, producing a structured Markdown report for extracting variables, trends, and conclusions.

Convert files and Office documents into clean Markdown when you need LLM-friendly, token-efficient text (e.g., for summarization, search, RAG ingestion, or dataset preparation).

Run `/commit-rules` to load commit message rules and technical constraints.

Standard implementation flow: load style rules, make the change, run post-implementation QA.

| What this skill does | What it does NOT do |

Run a structural estimation pipeline — routes to /workflows:work with estimation context from empirical-playbook

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Build and verify replication packages — routes to reproducibility-auditor agent

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Explore methodological approaches through structured analysis before planning implementation

Document a recently solved research problem to compound methodological knowledge

Execute research implementation plans efficiently while maintaining estimation quality and finishing features

Extract TikZ diagrams from Beamer source, compile to PDF, convert to SVG with 0-based indexing. Use when updating TikZ diagrams for Quarto slides.

Submission pipeline — journal targeting, replication package, audit, and final gate. Replaces /submit, /target-journal, /audit-replication, /data-deposit.

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Integrate AI tools into economic research, teaching, and policy analysis with attention to privacy and reproducibility.

humanize

Cross-checks citation keys in index.qmd against references.bib, reporting missing, orphaned, and duplicate entries. Use when verifying citations.

Executes all registered notebooks, strips noisy cell metadata, and syncs Jupytext pairs. Use when asked to re-run notebooks or refresh outputs.

Checks whether registered notebooks have current, stale, or missing outputs. Use before rendering or to verify freshness.

Extract and apply knowledge from Kaggle competition winning solutions. This skill provides access to a continuously updated knowledge base of techniques, code patterns, and best practices from top Kag

Apply NLP and text mining techniques to research text data

Apply computer vision research methods, models, and evaluation tools

Curated guide to generative AI covering LLMs and diffusion models

Build and deploy reproducible production ML pipelines for research

Guide to Transformer architectures for NLP and computer vision

Query AlphaFold protein structure predictions by UniProt accession

Workflows for RNA-seq, GWAS, and variant calling in genomic research

Medical image analysis with deep learning for research applications

Access genomes, genes, and taxonomy data via NCBI Datasets v2 API

Papers on LLMs for IT operations and AIOps research

Evidence-based learning science principles for educational research and practice

Query 360+ years of US case law via the Harvard Caselaw Access Project

NLP techniques for legal text analysis, case law mining, and contracts

Topological data analysis: persistent homology, Mapper, and TDA tools

6 pharmaceutical research skills. Trigger: drug discovery, pharmacology, clinical trial design, regulatory filing. Design: end-to-end pipeline from target identification to clinical trials.