「report」の検索結果

End-to-end eDNA metabarcoding from raw amplicons to community ecology. Covers QC, primer removal (mandatory before DADA2 filterAndTrim), denoising with OBITools3 v3 (obi stats plural; DMS-based) or DADA2 ASVs (Callahan 2017), decontam combined method as screening-not-classifier (Davis 2018), tag-jumping with NovaSeq 10x MiSeq caveat (Schnell 2015), Hill-number effective species counts with coverage-based rarefaction (Jost 2006; Chao & Jost 2012; doubling rule), beta-diversity decomposition with MANDATORY PERMANOVA + PERMDISP pair (Anderson & Walsh 2013), constrained ordination, and the read-counts-not-abundance critique (Lamb 2019). Use when processing eDNA samples for biodiversity assessment, deciding ASV vs OTU, configuring OBITools3 v3, interpreting decontam screening, or reporting community comparisons with the dispersion confound check.

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End-to-end clinical trial analysis workflow from CDISC SDTM/ADaM loading through ICH E9(R1) estimand-driven primary analysis to CONSORT 2025 regulatory-compliant reporting. Covers data preparation, FDA 2023 marginal vs conditional logistic regression, categorical tests with Boschloo, modern HTE/subgroup methods, missing-data sensitivity (MMRM, reference-based MI, Permutt tipping point), graphical multiplicity (Bretz-Maurer), survival analysis (Cox/RMST/competing risks) when applicable, and Table 1. Use when performing a complete analysis of clinical trial data.

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Statistical models library for Python. Use when you need specific model classes (OLS, GLM, mixed models, ARIMA) with detailed diagnostics, residuals, and inference. Best for econometrics, time series, rigorous inference with coefficient tables. For guided statistical test selection with APA reporting use statistical-analysis.

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Metabolomics research — metabolite identification, study analysis, and database searches across HMDB, MetaboLights, Metabolomics Workbench, KEGG. Use for annotating mass-spec features to known metabolites, finding metabolomics studies of a disease, and structured metabolomics research reports with metabolite-pathway mapping.

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Pharmacogenomics (PGx) research — drug-gene interactions (CPIC, PharmGKB), CPIC dosing guidelines, variant-drug-response associations, ethnic-allele-frequency considerations, and metabolizer-status scoring. Use for PGx-informed dosing recommendations, CYP/HLA pharmacogenomic allele interpretation, and clinically-actionable PGx report generation.

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Enzyme kinetics — Michaelis-Menten Km, Vmax, kcat (turnover), and kcat/Km (catalytic efficiency / specificity constant) from substrate-velocity data, plus inhibition-mechanism analysis (competitive / uncompetitive / non-competitive, Ki). Fits the MM equation by nonlinear regression (and reports Lineweaver-Burk for reference). Use when you have substrate concentrations and initial reaction velocities and need kinetic parameters or to classify an inhibitor. NOT for BRENDA database lookups of published constants (use the BRENDA tools).

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Drug and chemical toxicity assessment via adverse outcome pathways (AOPs), real-world FAERS adverse event signals, FDA labels, and toxicogenomic associations. Triangulates molecular initiating event to cellular outcome to organ-level toxicity to clinical adverse event. Use for hepatotoxicity/cardiotoxicity/nephrotoxicity prediction and toxicology reports.

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Comprehensive drug profiling — mechanism, primary/secondary targets, drug interactions, clinical-trial status, adverse events (FAERS), pharmacogenomics, and approval history. Use for full drug investigation reports, 'tell me about drug X' queries, and assembling drug profiles for clinicians, researchers, or regulatory work.

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Drug regulatory and approval research — FDA substance registry, ATC/EPC classification, EMA decisions, generic-drug status, FDA Orange Book exclusivity, NDA/BLA pathways. Use for jurisdiction-aware approval status (FDA vs EMA), generic vs brand availability, exclusivity expiry tracking, and regulatory pathway selection. Always specifies the market when reporting status.

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Trace drug mechanism of action — primary target → downstream signaling → pathway perturbation → tissue/organ effect → clinical outcome. Uses DrugBank, ChEMBL, KEGG, Reactome, STRING. Use for understanding how a drug works, identifying off-target effects, mechanism-based combination therapy design, and writing mechanism sections of reports.

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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.

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Use every time you push a commit to an active pull request, to verify the PR is truly stable before reporting merge readiness. Covers the post-push wait window, AI review audit (Copilot/Greptile/Codex), and the gh commands to snapshot PR state. Trigger on "I pushed" or "is the PR ready to merge".

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Walk every branching path and boundary condition in content, report only unhandled edge cases. Orthogonal to adversarial review - method-driven not attitude-driven. Use when you need exhaustive edge-case analysis of code, specs, or diffs.

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Refresh drift-prone documentation against current code. Reads docs/architecture/freshness-catalog.yml, diffs against the last sweep's upstream/main anchor, regenerates mechanical entries, processes editorial markers, and opens one PR per sweep with a report file.

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Daily per-section review cycle driving a section toward the smallest, clearest form that still does everything it does today. Selects its section live each run (scripted), inventories every file, derives the target shape before any scan, works parallel reading threads into one ranked list and strikes it on a 2-3h budget. One PR per run; each run's report and Needs-Peter queue live in its own docs/health/runs/ file; 'resume' applies Peter's answers later. Use for the morning section-improvement run, 'doctor <section>', or 'run section doctor'.

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Write concise technical guidance, PR notes, architecture explanations, and reproducible verification reports.

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Extract invoice data and generate a formatted PDF summary in a single pipeline.

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Generate a formatted XLSX spreadsheet with sales data, currency formatting, and bold headers.

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Extract property, owner, legal description, liens, mortgages, easements, and tax status from title search reports.

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Extract appraised value, property details, and comparable sales from a property appraisal report into structured JSON.

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Extract campaign or business KPIs from report documents — metrics, values, periods, and targets.

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Convert external documents — specs, contracts, reports — to markdown for knowledge base ingestion.

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Runs the Autoware autonomous-driving stack against CARLA on UE 5.8 over CARLA's native ROS 2 interface — no bridge process. Reports the DDS contract (rt/vehicle/status/* out, rt/control/command/* in), the Autoware-only sensor blueprints, generates the lanelet2 + point-cloud map artifacts Autoware needs instead of an .xodr, and drives the two shipped modes (classical NDT stack, or the camera-only VAD end-to-end model). Use when the user asks to "run Autoware on CARLA", "connect an AV stack", "drive the ego from Autoware", "generate a lanelet2 map", or asks which topics CARLA exchanges with Autoware.

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Runs standard-format scenarios through ScenarioRunner — ASAM OpenSCENARIO 1.x (.xosc, via --openscenario, with catalogs and ParameterDeclaration overrides) and OpenSCENARIO 2.0 (.osc, via --openscenario2, the ANTLR/osc2 pipeline). Validates a file against the schema before running, lists the bundled examples, and reports which OSC features ScenarioRunner actually implements. Use when the user asks to "run an xosc", "run an OpenSCENARIO file", "use the OpenSCENARIO standard", "run a .osc / OSC2 scenario", or hands over a scenario file from another tool.

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