Results for “sampling”

Run Bayesian phylogenetic analysis with MrBayes, BEAST2, RevBayes, and PhyloBayes including MCMC convergence diagnostics and model comparison. Use when needing posterior probability support, Bayesian model averaging, site-heterogeneous models for deep phylogenies, or formal model comparison via stepping-stone sampling.

The English summary is being prepared. Showing the original description.

Proteina-Complexa flow-based protein backbone generation with fold-conditioned sampling guidance. Use this skill when: (1) Generating de novo protein backbones with hierarchical fold conditioning, (2) Exploring long-chain backbone generation beyond standard diffusion baselines, (3) Using NVIDIA Proteina-style flow matching workflows for controllable backbone design, (4) Comparing flow-based backbone generation against RFdiffusion or BoltzGen, (5) Prototyping fold-guided backbone campaigns before sequence design. This skill is based on the public NVIDIA Digital Bio Proteina project and uses "Proteina-Complexa" as the BioClaw-facing skill label. For sequence design after backbone generation, use proteinmpnn or solublempnn. For QC thresholds, use protein-design-qc.

The English summary is being prepared. Showing the original description.

Design and implement Monte Carlo methods for uncertainty quantification, risk analysis, and probabilistic simulations across scientific and financial domains. Use when "monte carlo, random sampling, uncertainty quantification, risk analysis, stochastic simulation, MCMC, variance reduction, probabilistic, " mentioned.

The English summary is being prepared. Showing the original description.

Audit whether a paper's EVALUATION DESIGN actually measures what it claims and whether its reporting is complete — the validity layer family D (experiment-forensics) cannot reach. Three patterns: train/test leakage means the reported score may not measure generalization (HP-EVAL-LEAKAGE — adopts the Kapoor & Narayanan 8-type / 3-category leakage taxonomy; the illegitimate-proxy / sampling-bias / pretraining-contamination subtypes hand off as needs_external_check, naming but NEVER running Oren-2023 exchangeability / Shi-2023 Min-K% / Golchin-2023 Time-Travel / BIG-bench canary); a load-bearing LLM judge is conflicted (same model/family as a compared system) or unvalidated (no human-agreement, no bias control) (HP-JUDGE-VALIDITY); a declared condition/metric is dropped or switched to favor the method, or 'best' is chosen with no held-out set (HP-SELECTIVE-REPORTING). Verdict-bearing at L0/L1 from the DESCRIBED protocol — NOT repo-gated like experiment-forensics; L2 only CONFIRMS against split/preprocessing/result files. A fresh cross-model reviewer (gpt-5.6-sol xhigh, read-only, fresh thread per pass) PROPOSES findings, each span-anchored to a ledger claim_id; tools/adjudicate_findings.py DECIDES the verdict. Leakage and under-reporting are usually HONEST methodological errors — every finding describes a discrepancy to CHECK, never an accusation. An LLM generating GROUND-TRUTH labels is HP-FAKE-GT (experiment-forensics) — routed there, not here. Emits eval-design-forensics.findings.json; computes NO verdict. Detect-only. Triggers: "eval design audit", "evaluation validity", "train/test leakage", "data leakage", "is the score measuring generalization", "LLM judge bias", "is the judge validated", "selective reporting", "cherry-picked results", "评估设计审计", "评测有效性", "数据泄漏", "训练测试集泄漏", "裁判模型有没有验证", "选择性报告".

The English summary is being prepared. Showing the original description.

Interpret video content visually by sampling frames into timestamped contact sheets that can be read as images. Use when: user asks what happens in a video; asks to summarize, describe, review, or QA video content or footage; asks about scenes, actions, people, or objects in a video; needs a storyboard-style overview of a clip; asks to find where something occurs in a video. Triggers on 'watch this video', 'what's in this video', 'summarize the video', 'describe the footage', 'contact sheet', 'storyboard', 'review this clip', 'find the scene where', 'scene detection', 'shot boundaries', 'detect cuts', 'dwell points'. For converting, trimming, or transcoding video, use processing-video instead.

The English summary is being prepared. Showing the original description.

DEPRECATED - Use browsing-bluesky skill instead. Sample and analyze Bluesky firehose to identify trending topics and content clusters. Use when user asks about "what's happening on Bluesky", "Bluesky trends", "zeitgeist", "firehose analysis", or wants to see real-time topic clusters from the network.

The English summary is being prepared. Showing the original description.

Browse Bluesky content via API and firehose - search posts, fetch user activity, sample trending topics, read feeds and lists, analyze and categorize accounts. Supports authenticated access for personalized feeds. Use for Bluesky research, user monitoring, trend analysis, feed reading, firehose sampling, account categorization.

The English summary is being prepared. Showing the original description.

Use when building or changing features, preprocessing, encoders, resampling or train/validation/test splits — keep every fitted transform inside a Pipeline fitted on training folds only, and build time and group features without seeing the future or the same entity twice

The English summary is being prepared. Showing the original description.

Field observation, data collection, and research methods for geographic inquiry. Covers site selection and sampling strategies, field observation techniques (landscape reading, transects, quadrats), survey and interview methods for human geography, GPS and field mapping, environmental monitoring and instrumentation, data recording and field notebooks, ethical considerations in fieldwork, and the integration of field data with GIS analysis. Use when planning geographic field research, designing data collection protocols, evaluating field evidence, or connecting field observations to broader geographic analysis.

The English summary is being prepared. Showing the original description.

Foundations of digital signal processing — sampling, aliasing, the Nyquist criterion, quantization, convolution, the discrete Fourier transform, FFT, FIR and IIR filter design, windowing, spectral leakage, and practical issues in fixed-point versus floating-point implementation. Use when designing filters, analyzing spectra, choosing sample rates, reasoning about aliasing, or implementing DSP algorithms on a microcontroller, DSP chip, or host CPU.

The English summary is being prepared. Showing the original description.

Embedded firmware development for microcontrollers including memory-mapped I/O, GPIO, interrupts, timers, UART/SPI/I2C serial protocols, PWM generation, ADC sampling, interrupt-driven versus polled architectures, RTOS fundamentals, and the bring-up sequence from power-on reset through first printf. Covers AVR/Arduino, ARM Cortex-M, and ESP32 patterns. Use when writing, porting, debugging, or reviewing firmware that directly manipulates hardware peripherals.

The English summary is being prepared. Showing the original description.

Evaluating the quality, provenance, and relevance of evidence that supports or undermines a claim. Covers source credibility, sampling quality, study design, levels of evidence (anecdote to meta-analysis), base rate integration, distinguishing primary from secondary sources, and calibrating belief to evidence strength. Use when the question is not whether an argument is valid but whether its premises are actually supported by the available data.

The English summary is being prepared. Showing the original description.

Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.

The English summary is being prepared. Showing the original description.

Retroductive hypothesis sampling via MCMC: given observations, importance-sample explanations weighted by P(observation|hypothesis) using Gay.jl colored particles as hypothesis candidates.

The English summary is being prepared. Showing the original description.

Reviews LLM integration, prompt templates, model selection, token/cost budgets, evaluation harnesses, structured outputs, retries, and streaming. Checks trust boundaries and task evidence against the selected provider/model contract rather than prescribing universal model tiers or sampling settings.

The English summary is being prepared. Showing the original description.

Expert logging guidance based on Boris Tane's loggingsucks.com philosophy. Use when implementing logging, adding observability, debugging production issues, or reviewing code that includes log statements. Covers wide events architecture, structured logging, smart sampling, and high-cardinality field design.

The English summary is being prepared. Showing the original description.

Nature-style climate and ecology manuscript reviewer skill for testing biodiversity, ecosystem-function, carbon-cycle, conservation, global-change and ecological-inference claims against sampling, causal design, model structure, uncertainty and management scope.

The English summary is being prepared. Showing the original description.

Generate and optimise novel small molecules with REINVENT 4 — de novo sampling from a chemical language model, scaffold decoration with LibInvent, fragment linking with LinkInvent, and similarity-constrained analogue generation with Mol2Mol. Use this skill to set up reinforcement-learning or curriculum runs, compose a multi-parameter scoring function from docking scores, predictive models, and physicochemical desirability, and read the resulting sampled sets. Also trigger on REINVENT, LibInvent, LinkInvent, Mol2Mol, scaffold hopping, R-group replacement, linker design, chemical language model, or reinforcement-learning molecule optimisation.

The English summary is being prepared. Showing the original description.

Run and analyze molecular dynamics simulations with OpenMM and MDAnalysis. Set up protein and protein-ligand systems with PDBFixer, choose force fields and water models (AMBER14, CHARMM36m, ff19SB, GAFF2, TIP3P), solvate and add ions, run energy minimization, NVT/NPT equilibration and production MD on GPU, then analyze trajectories for RMSD, RMSF, radius of gyration, hydrogen bonds, native contacts, PCA and free energy surfaces. Use this skill for protein stability under mutation, ligand binding-mode and residence-time questions, conformational sampling, membrane proteins, and disordered ensembles. Also trigger on OpenMM, MDAnalysis, mdtraj, Simulation.step, LangevinMiddleIntegrator, PDBFixer, DCD or XTC trajectory, RMSD analysis, or production MD.

The English summary is being prepared. Showing the original description.

DiffDock and DiffDock-L diffusion-based molecular docking. Use for blind protein-small-molecule pose prediction from a PDB file or sequence plus SMILES/SDF/MOL2, batch docking over a CSV of complexes, virtual screening triage, sampling multiple poses per complex, and reading the confidence score correctly. Also trigger on DiffDock, DiffDock-L, inference.py, confidence_model, samples_per_complex, ESM embedding preparation for docking, or blind docking without a defined box. Not for binding affinity prediction — the confidence score ranks pose plausibility, not potency.

The English summary is being prepared. Showing the original description.

Fit cognitive drift-diffusion models (Ratcliff DDM) to reaction time and accuracy data with parameter estimation (drift rate, boundary separation, non-decision time), model comparison, and parameter recovery validation. Use when modeling binary decision-making with reaction time data, estimating cognitive parameters from experimental data, comparing sequential sampling model variants, or decomposing speed-accuracy tradeoff effects into latent cognitive components.

The English summary is being prepared. Showing the original description.

Instrument applications with OpenTelemetry for distributed tracing, including auto and manual instrumentation, context propagation, sampling strategies, and integration with Jaeger or Tempo. Use when debugging latency issues in distributed systems, understanding request flow across microservices, correlating traces with logs and metrics for root cause analysis, measuring end-to-end latency, or migrating from legacy tracing systems to OpenTelemetry.

The English summary is being prepared. Showing the original description.

Implement a generative diffusion model (DDPM or score-based) with noise scheduling, U-Net architecture, training loop, and sampling procedures including DDIM acceleration. Use when building a generative model for image, audio, or molecular synthesis; implementing DDPM from a research paper; adding a custom noise schedule or conditioning mechanism; replacing a GAN-based generator with a diffusion alternative; or prototyping before scaling with production frameworks like diffusers.

The English summary is being prepared. Showing the original description.

Alluvial gold recovery using panning, sluicing, and classification. Covers site reading (geological indicators, stream dynamics, pay streak location), panning technique, sluice box operation, and responsible extraction practices. Use when prospecting in an area with known or suspected alluvial gold deposits, sampling a stream to test for gold presence, maximizing recovery during recreational panning, or assessing a site's gold potential before investing more effort.

The English summary is being prepared. Showing the original description.