Beita6969@ScienceClaw

Search and retrieve chemical compound data from PubChem's PUG REST API (110M+ compounds). Use when the user needs compound properties, molecular structures, similarity searches, substructure searches, or bioactivity data. NOT for protein structures (use pdb-structure), NOT for drug-target interactions (use chembl-drug), NOT for gene-disease associations (use open-targets).

Search Semantic Scholar for academic papers across all disciplines with citation graph analysis. Use when: (1) finding papers across disciplines, (2) citation/reference graph traversal, (3) author search, (4) paper recommendations, (5) large-scale bibliometric analysis. NOT for: specific database access (use pubmed for biomedical, arxiv for preprints).

Search and fetch structured content from Wikipedia using the MediaWiki API for reliable, encyclopedic information

Astronomical computations via Astropy. Use when: user asks about celestial coordinates, FITS files, or cosmological calculations. NOT for: telescope control or real-time observation planning.

Analyze citation networks, compute bibliometric indicators, and identify research fronts. Use when: user asks about citation patterns, h-index, co-authorship networks, research trends, or bibliometric analysis. NOT for: literature searching (use literature-search) or writing papers (use paper-writing).

Design scientific experiments including sample size calculation, randomization, control groups, blinding, and study protocols. Covers RCTs, quasi-experiments, factorial designs, A/B tests, survey design, and observational studies. Use when user asks to design an experiment, calculate sample size, plan a study, set up controls, or create a research protocol. Triggers on "design experiment", "sample size", "power analysis", "study design", "control group", "randomization", "A/B test", "factorial design", "survey design".

Verify scientific claims, political statements, and environmental assertions against evidence

Orchestrates a genomics analysis workflow from gene query through expression analysis to pathway enrichment. Use when investigating gene function, analyzing expression data, or performing pathway-level interpretation. NOT for pure protein structure modeling or drug-target interaction analysis.

Geospatial and climate data analysis with geopandas and xarray. Use when: (1) geographic vector data analysis, (2) climate and weather NetCDF data, (3) spatial joins and overlay operations, (4) map visualization, (5) CRS transformations and area calculations. NOT for: satellite imagery ML (use rasterio/torchgeo), real-time GPS tracking, or interactive web maps (use folium/leaflet directly).

Comprehensive multi-database scientific literature search orchestrating Semantic Scholar, OpenAlex, arXiv, PubMed, and CrossRef. Use when: (1) systematic literature review, (2) finding all relevant papers on a topic, (3) checking state of the art, (4) building comprehensive bibliographies. NOT for: single-database queries (use specific search skills), data analysis (use code-execution).

Query the Materials Project API v3 for crystal structures, band gaps, formation energies, and thermodynamic stability of 150k+ inorganic materials. Use when: (1) searching materials by chemical formula, (2) looking up material properties by MP ID, (3) filtering materials by band gap, energy, or density, (4) finding stable phases for a composition. NOT for: organic molecules (use pubchem-compound), proteins (use uniprot-protein), drug compounds (use chembl-drug).

Analyzes material properties including crystal structures, phase diagrams, mechanical/thermal/electronic properties, and supports materials discovery through computational approaches; trigger when users discuss alloys, ceramics, polymers, nanomaterials, or materials characterization.

Analyze political data, fact-check claims, and study policy impacts using evidence-based methods

Analyzes protein 3D structures, performs homology modeling, interprets AlphaFold predictions, conducts molecular docking, and evaluates protein-ligand interactions; trigger when users ask about PDB files, folding, binding sites, or structural biology.

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.

Single-cell RNA-seq analysis with scanpy and anndata. Use when: (1) scRNA-seq preprocessing and QC, (2) clustering and cell type annotation, (3) differential expression analysis, (4) trajectory and pseudotime analysis, (5) UMAP/tSNE visualization. NOT for: bulk RNA-seq differential expression (use DESeq2/edgeR), protein structure analysis (use pdb-structure), or imaging data.

Performs signal processing tasks including spectral analysis (FFT), digital filtering, time-frequency decomposition, noise reduction, and modulation/demodulation; trigger when users discuss waveforms, frequency spectra, filters, or time series in engineering contexts.

Statistical analysis via statsmodels. Use when: user asks for regression, hypothesis testing, or time series analysis. NOT for: machine learning models or deep learning.

Orchestrates a systematic review and meta-analysis workflow following PRISMA 2020 guidelines, from protocol development through multi-database search, screening, data extraction, and evidence synthesis. Use when conducting evidence-based reviews, meta-analyses, or scoping reviews. NOT for single-study analysis or narrative literature surveys.

Screen papers for systematic reviews using ASReview active learning. Use when: user has a large set of papers to screen for inclusion/exclusion, wants to prioritize relevant papers, or needs to reduce manual screening workload. NOT for: searching papers (use literature-search) or meta-analysis (use meta-analysis).

Access Copernicus Climate Data Store (CDS) for ERA5 reanalysis, climate projections, and satellite observations. Use when: (1) retrieving historical weather/climate data, (2) downloading ERA5 reanalysis fields, (3) querying climate projections (CMIP), (4) getting satellite-derived climate variables. NOT for: real-time weather forecasts (use weather APIs), ocean biology (use Copernicus Marine), air quality (use CAMS).

Economic analysis including econometrics, causal inference, time series economics, game theory, welfare analysis, and economic modeling. Use when user works with economic data, regression analysis, instrumental variables, difference-in-differences, RDD, panel data, or economic theory. Triggers on "econometrics", "regression", "causal inference", "instrumental variable", "difference-in-differences", "panel data", "game theory", "supply demand", "GDP", "inflation", "economic model".

Supports education research including pedagogical method evaluation, learning analytics, assessment design, curriculum development analysis, and educational technology evaluation; trigger when users discuss teaching effectiveness, learning outcomes, educational interventions, or student performance data.

Materials science computation with pymatgen. Use when: (1) crystal structure creation and manipulation, (2) phase diagram construction, (3) electronic structure analysis, (4) symmetry and space group operations, (5) VASP input/output parsing. NOT for: molecular chemistry (use rdkit-chemistry), protein structure (use biopython-bio), or general numerical computation (use scipy-analysis).

Assist with scientific paper writing, LaTeX formatting, abstract drafting, review responses, grant proposals, and academic communication. Use when user asks to write/edit a paper section, draft an abstract, format in LaTeX, respond to reviewer comments, write a grant proposal, or improve academic writing. Triggers on "write abstract", "draft introduction", "LaTeX", "reviewer response", "grant proposal", "improve my writing", "paper draft", "methods section".

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).

Analyzes astronomical observations and cosmological models including telescope data processing, celestial mechanics calculations, stellar evolution, galaxy classification, and cosmological parameter estimation; trigger when users discuss stars, galaxies, exoplanets, dark matter, or the universe's large-scale structure.

Comprehensive citation management for academic research. Search Google Scholar and PubMed for papers, extract accurate metadata, validate citations, and generate properly formatted BibTeX entries. This skill should be used when you need to find papers, verify citation information, convert DOIs to BibTeX, or ensure reference accuracy in scientific writing.

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Design rigorous scientific experiments with power analysis and controls. Use when: user needs to plan an experiment, calculate sample sizes, or set up controls. NOT for: running experiments or analyzing collected data.

Performs geospatial data analysis including GIS operations, spatial statistics, remote sensing image processing, geocoding, and cartographic visualization; trigger when users discuss maps, coordinates, satellite imagery, spatial patterns, or geographic data.

Discover patterns, build knowledge graphs, and extract insights from linguistic and historical data

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Orchestrates a materials screening workflow from database search through property filtering to stability assessment and ranking. Use when identifying candidate materials for batteries, catalysts, semiconductors, or other applications. NOT for molecular chemistry or biological compound analysis.

Conduct psychological research analysis including mental health, cognitive science, and behavioral studies

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Reflect on completed research tasks to improve future performance. Use when: a research task has just been completed and the agent should evaluate its own process, store lessons learned, or retrieve past reflections before starting new work. NOT for: active research execution or data analysis.

Advanced statistical testing including hypothesis testing, Bayesian analysis, survival analysis, time series, multivariate methods, and meta-analysis. Use when user needs specific statistical tests beyond basic EDA, power analysis, Bayesian inference, survival curves, time series forecasting, or meta-analysis. Triggers on "hypothesis test", "Bayesian", "survival analysis", "time series", "meta-analysis", "bootstrap", "permutation test", "mixed model", "structural equation".

Analyze language structures, typological features, and semantic change across languages

Mathematical and physical reasoning with formal proof construction and problem solving

Retrieve and recommend relevant documents from financial, historical, and scientific archives

Analyzes environmental and climate data including temperature trends, pollution monitoring, ecological modeling, carbon footprint assessment, and biodiversity metrics; trigger when users discuss climate change, ecosystems, pollutants, or sustainability assessments.

Identify research gaps, synthesize cross-disciplinary insights, and generate novel hypotheses. Use when: user asks about unexplored areas, cross-field connections, or new research directions. NOT for: routine literature review or data analysis.

Perform multi-step scientific reasoning, proof construction, causal inference, and logical argumentation. Use when: (1) deriving conclusions from premises, (2) causal analysis, (3) mathematical proofs, (4) hypothesis evaluation, (5) counterfactual reasoning. NOT for: simple factual questions (use scienceclaw-qa), data analysis (use code-execution), or literature search (use scienceclaw-retrieval).

Retrieve scientific information from databases, literature, and knowledge bases. Use when: (1) finding relevant papers, (2) querying scientific databases, (3) cross-referencing findings, (4) building bibliographies, (5) systematic literature search. NOT for: answering questions (use scienceclaw-qa), summarizing (use scienceclaw-summarization), or data analysis (use code-execution skill).

Generate scientific code, protocols, and domain-specific text with quality control

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Predict material properties, economic indicators, and scientific outcomes using computational models

Search ClinicalTrials.gov with natural language queries. Find clinical trials, enrollment, and outcomes using Valyu semantic search.

Extract structured entities, relations, and clauses from scientific and legal documents

Generate scientific hypotheses, experimental designs, and paper drafts. Use when: user asks to propose hypotheses, design experiments, or write scientific content. NOT for: data analysis or literature search.

Predict scientific properties, trends, and outcomes. Use when: user asks for property prediction, trend forecasting, or model-based estimation. NOT for: historical data lookup or real-time monitoring.

HuggingFace Transformers for model inference. Use when: text classification, NER, question answering, summarization, embeddings, zero-shot classification. NOT for: training large models (use cloud), simple regex/rule-based tasks, production serving at scale (use vLLM).

Orchestrates a full drug discovery workflow from target identification through lead optimization. Use when searching for drug candidates against a biological target, evaluating compound libraries, or optimizing hits for drug-likeness. NOT for pure protein structure analysis or single-compound lookups.

Social science research methods including survey design, qualitative analysis, content analysis, network analysis, psychometrics, and mixed methods. Covers sociology, psychology, political science, education, and communication studies. Use when user designs surveys, analyzes qualitative data, does content analysis, builds scales, or uses mixed methods. Triggers on "survey design", "qualitative analysis", "content analysis", "Likert scale", "thematic analysis", "grounded theory", "factor analysis", "SEM", "structural equation", "psychometrics", "interview coding".

Orchestrates a social science research workflow from literature review through data collection, text analysis, statistical modeling, and report generation. Use when conducting empirical social science research, policy analysis, or mixed-methods studies. NOT for pure natural science analysis or clinical trial data.

Verify scientific claims, check calculations, validate experimental designs, and fact-check citations. Use when: (1) checking a claim against evidence, (2) validating statistical analyses, (3) verifying experimental reproducibility claims, (4) fact-checking references, (5) adversarial review of research. NOT for: generating new content (use scienceclaw-generation), simple QA (use scienceclaw-qa).

Summarize and simplify scientific literature, educational content, and research papers

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