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Topic: pubmed

43 skills in this topic.

biostatistics Performs biostatistical analyses specialized for clinical and biomedical research including survival analysis, Kaplan-Meier estimation, Cox proportional hazards regression, longitudinal data modeling, and diagnostic test evaluation; trigger when users discuss clinical outcomes, survival curves, or biomedical study statistics.
beita6969/ScienceClaw 571
lit-synthesizer Search PubMed and bioRxiv, summarise papers with LLM, build citation graphs, and generate literature review sections.
beita6969/ScienceClaw 571
networkx Comprehensive toolkit for creating, analyzing, and visualizing complex networks and graphs in Python. Use when working with network/graph data structures, analyzing relationships between entities, computing graph algorithms (shortest paths, centrality, clustering), detecting communities, generating synthetic networks, or visualizing network topologies. Applicable to social networks, biological networks, transportation systems, citation networks, and any domain involving pairwise relationships.
beita6969/ScienceClaw 571
research-lookup Look up current research information using the Parallel Chat API (primary) or Perplexity sonar-pro-search (academic paper searches). Automatically routes queries to the best backend. Use for finding papers, gathering research data, and verifying scientific information.
beita6969/ScienceClaw 571
science-communication
beita6969/ScienceClaw 571
exploratory-data-analysis Perform comprehensive exploratory data analysis on scientific data files across 200+ file formats. This skill should be used when analyzing any scientific data file to understand its structure, content, quality, and characteristics. Automatically detects file type and generates detailed markdown reports with format-specific analysis, quality metrics, and downstream analysis recommendations. Covers chemistry, bioinformatics, microscopy, spectroscopy, proteomics, metabolomics, and general scientific data formats.
beita6969/ScienceClaw 571
epidemiology Performs epidemiological analyses including disease modeling (SIR/SEIR), outbreak investigation, risk factor identification, incidence/prevalence estimation, and causal inference from observational data; trigger when users discuss disease spread, public health data, or population-level health patterns.
beita6969/ScienceClaw 571
energy-systems Analyzes energy systems including renewable energy resource assessment, power grid modeling, battery storage optimization, energy efficiency evaluation, and techno-economic analysis of energy technologies; trigger when users discuss solar, wind, grid integration, energy storage, or power system design.
beita6969/ScienceClaw 571
data-stats-analysis Perform statistical tests, hypothesis testing, correlation analysis, and multiple testing corrections using scipy and statsmodels. Works with ANY LLM provider (GPT, Gemini, Claude, etc.).
beita6969/ScienceClaw 571
data-extractor Extract numerical data from scientific figure images using Claude vision + OpenCV calibration. Supports 26+ plot types including bar charts, scatter plots, forest plots, Kaplan-Meier curves, box plots, and more.
beita6969/ScienceClaw 571
nonlinear-solvers Select and configure nonlinear solvers for f(x)=0 or min F(x). Use for Newton methods, quasi-Newton (BFGS, L-BFGS), Broyden, Anderson acceleration, diagnosing convergence issues, choosing line search vs trust region, and analyzing Jacobian quality.
beita6969/ScienceClaw 571
pubmed-database Direct REST API access to PubMed. Advanced Boolean/MeSH queries, E-utilities API, batch processing, citation management. For Python workflows, prefer biopython (Bio.Entrez). Use this for direct HTTP/REST work or custom API implementations.
beita6969/ScienceClaw 571
wikidata-knowledge Query Wikidata for structured knowledge using SPARQL and entity search. Use when: (1) finding structured facts about entities (people, places, organizations), (2) querying relationships between entities, (3) cross-referencing external identifiers (Wikipedia, VIAF, GND, ORCID), (4) building knowledge graphs from linked data. NOT for: full-text article content (use Wikipedia API), scientific literature (use semantic-scholar), geospatial data (use OpenStreetMap).
beita6969/ScienceClaw 571
math-computation Mathematical computation including symbolic math, numerical methods, linear algebra, calculus, differential equations, optimization, and mathematical modeling. Uses Python with SymPy, NumPy, SciPy. Use when user asks to solve equations, compute integrals/derivatives, do matrix operations, solve ODEs/PDEs, optimize functions, or build mathematical models. Triggers on "solve equation", "integral", "derivative", "matrix", "eigenvalue", "differential equation", "optimization", "linear algebra", "symbolic math", "proof".
beita6969/ScienceClaw 571
biorxiv-search Search bioRxiv biology preprints with natural language queries. Semantic search powered by Valyu.
beita6969/ScienceClaw 571
bear-notes Create, search, and manage Bear notes via grizzly CLI.
beita6969/ScienceClaw 571
arxiv-search Search arXiv for preprints in physics, math, CS, quantitative biology, quantitative finance, statistics, electrical engineering, economics. Use when: (1) finding preprints by topic, (2) searching by author, (3) browsing arXiv categories, (4) getting paper metadata/abstracts. NOT for: published journal articles (use crossref-search), biomedical (use pubmed-search).
beita6969/ScienceClaw 571
prose OpenProse VM skill pack. Activate on any `prose` command, .prose files, or OpenProse mentions; orchestrates multi-agent workflows.
beita6969/ScienceClaw 571
xurl A CLI tool for making authenticated requests to the X (Twitter) API. Use this skill when you need to post tweets, reply, quote, search, read posts, manage followers, send DMs, upload media, or interact with any X API v2 endpoint.
beita6969/ScienceClaw 571
quantum-computing Designs and analyzes quantum computing solutions including quantum circuit construction, algorithm implementation, error correction, and quantum advantage assessment; trigger when users discuss qubits, quantum gates, quantum algorithms, or quantum hardware.
beita6969/ScienceClaw 571
test-driven-development Use when implementing any feature or bugfix, before writing implementation code
beita6969/ScienceClaw 571
feishu-drive Feishu cloud storage file management. Activate when user mentions cloud space, folders, drive.
beita6969/ScienceClaw 571
feishu-doc Feishu document read/write operations. Activate when user mentions Feishu docs, cloud docs, or docx links.
beita6969/ScienceClaw 571
diffs Use the diffs tool to produce real, shareable diffs (viewer URL, file artifact, or both) instead of manual edit summaries.
beita6969/ScienceClaw 571