「distance」の検索結果

Comprehensive Python library for astronomy and astrophysics. This skill should be used when working with astronomical data including celestial coordinates, physical units, FITS files, cosmological calculations, time systems, tables, world coordinate systems (WCS), and astronomical data analysis. Use when tasks involve coordinate transformations, unit conversions, FITS file manipulation, cosmological distance calculations, time scale conversions, or astronomical data processing.

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Master advanced AgentDB features including QUIC synchronization, multi-database management, custom distance metrics, hybrid search, and distributed systems integration. Use when building distributed AI systems, multi-agent coordination, or advanced vector search applications.

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mdtraj molecular dynamics trajectory analysis (Python). Reads DCD/XTC/TRR/NetCDF/H5/PDB topologies and trajectories; computes RMSD vs time, radius of gyration, per-residue RMSF, residue-residue contact frequency maps, phi/psi torsions for Ramachandran plots (general + Gly/Pro), and 8-state DSSP secondary structure. Modules: trajectory I/O, geometry (distances/angles/dihedrals), structural analysis (RMSD/Rg/RMSF/SASA), contacts, hydrogen bonds, secondary structure (DSSP), NMR observables. For broader atom-selection grammar use mdanalysis-trajectory; for running MD simulations use OpenMM/GROMACS.

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Analyze MD trajectories from GROMACS, AMBER, NAMD, CHARMM, LAMMPS. Reads topology/trajectory into Universe objects; supports RMSD, RMSF, radius of gyration, contact maps, H-bonds, PCA, and custom distance/angle calculations. Use for post-simulation structural analysis; use OpenMM/GROMACS for running simulations.

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Core Python library for astronomy/astrophysics: units with dimensional analysis, celestial coordinate transforms (ICRS/Galactic/AltAz/FK5), FITS I/O, tables (FITS/HDF5/VOTable/CSV), cosmology (Planck18, distance/age), precise time (UTC/TAI/TT/TDB, Julian, barycentric), WCS pixel-world mapping, model fitting. For general tables use pandas/polars; for radio interferometry use CASA.

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De novo and known TF motif enrichment in ChIP-seq/ATAC-seq peaks via HOMER. findMotifsGenome.pl finds over-represented patterns vs background; annotatePeaks.pl assigns context (TSS distance, gene, repeat). Use after MACS3 to identify enriched TFs, annotate peaks with nearest genes, and validate ChIP-seq via the target motif.

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Persistent compounding memory for AI agents. 5 default MCP tools: session_start, session_end, remember, recall, check. Full surface: 6 tools with --full (adds check_action); 13 tools with AR_EXTRAS=1 --full. Two-verb model: inhale (session_start) and exhale (session_end). Correction-first memory with decision trail tracking, watch_for warnings, palace rooms with salience scoring, cross-project insight matching, same-day journal merging, ambient recall hooks. Local markdown only. Zero cloud, zero telemetry, Obsidian-compatible. Optional Supabase backend: when configured via `ar setup supabase`, recall() uses pgvector cosine similarity on OpenAI/Voyage embeddings instead of keyword search — same API, semantic understanding. Gracefully degrades to local search if not configured.

日本語の概要は準備中です。原文の説明を表示しています。

Master advanced AgentDB features including QUIC synchronization, multi-database management, custom distance metrics, hybrid search, and distributed systems integration. Use when building distributed AI systems, multi-agent coordination, or advanced vector search applications.

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This skill should be used when the user asks to "plan a scene", "scene structure", "sequel scene", "dialogue subtext", "deep POV", "psychic distance", "try fail", "scene cards", "exposition", "info dump", "flashback", "time skip", "story opening", "first page hook", "introduce a character", "scene outcome", "yes-but no-and", "chapter hook", or wants scene-level craft for drafting or revision. NOT for book-level pacing or act structure (use plot-structure), or drafting the prose of a scene or chapter (use chapter-writing).

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Create original short videos using the 信息逼近｜远端警告压缩到当前空间 Creative DNA for MiniMax H3 or Seedance 2.0. Use when the user wants this causal, camera, motion, rhythm, or payoff structure with new subjects and surfaces.

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Think and work like an expert Landscape Ecologist. Use when a task calls for Landscape Ecologist judgment. Reasons from scale-explicit pattern-process feedbacks, configuration over composition, and functional rather than graphical connectivity through FRAGSTATS, landscapemetrics, Circuitscape resistance surfaces, NLMR neutral models, and block cross-validation, while treating MAUP grain artifacts, classification error propagation, isolation-by-distance confounding isolation-by-resistance, and resistance surfaces unvalidated by movement as first-class failure modes.

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Think and work like an expert Gravitational Physicist. Use when a task calls for Gravitational Physicist judgment. Reasons from calibrated strain, colored non-stationary noise PSDs, matched-filter SNR, and Bayesian posteriors through PyCBC/GstLAL/cWB searches, Bilby/LALInference PE with NRSur/SEOBNR/IMRPhenom waveforms, and FAR/p_astro significance while treating glitch contamination, waveform-approximant mismatch, mass-spin and distance-inclination degeneracies, and unmodeled selection effects as first-class failure modes.

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Think and work like an expert Galactic Astronomer. Use when a task calls for Galactic Astronomer judgment. Reasons from distance ladders, dust extinction, and survey selection functions through Gaia DR3 cross-matches, isochrone and Bayesian SFH fitting (PARSEC/MIST, Starfish), and orbit integration in named potentials (McMillan17, MWPotential2015) via galpy, Agama, and Gala, while treating parallax-S/N and RUWE failures, unresolved binaries and fiber collisions, dust-or-crowding overdensities, and spiral-arm-mimicking-streams as first-class failure modes.

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Think and work like an expert Fire Protection Engineer. Use when a task calls for Fire Protection Engineer judgment. Reasons from NFPA 13 Hazen-Williams hydraulics (K-factor, remote area, hose stream) and NFPA 101 egress (occupant load, travel distance, capacity factors) through NFPA 92 smoke containment/management, ASET/RSET PBD, and FDS/CFAST/CONTAM/PyroSim modeling while treating breached compartmentation, C-factor/fitting errors, and supply-curve shortfall as first-class failure modes.

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Think and work like an expert Ecologist. Use when a task calls for Ecologist judgment. Reasons from Preston/Fisher SADs and Hutchinson fundamental vs realized niches; designs quadrat/transect and distance/occupancy surveys; filters GBIF issue flags and iNaturalist DQA; fits vegan/iNEXT/unmarked GLMMs with Moran's I and nlme/glmmTMB spatial correlation while treating pseudoreplication, effort bias, and citizen-science artifacts as first-class failure modes.

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Think and work like an expert Conservation Biologist. Use when a task calls for Conservation Biologist judgment. Reasons from IUCN Red List A–E and Green Status recovery metrics, PVA/Ne, occupancy and distance sampling (unmarked, msocc, RMark), prioritizr/Marxan SCP, Conservation Evidence and ROSES synthesis, counterfactual impact evaluation, METT/SMART PAME, and eDNA false-positive models while treating pseudoreplication, GBIF effort bias, offset baselines, and Red List≠priority conflation as first-class failure modes.

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Maps GWAS-implicated loci to candidate effector (causal) genes by integrating variant-to-gene (V2G) features via Open Targets L2G (Mountjoy 2021), MAGMA gene-based association (de Leeuw 2015), FUMA SNP2GENE, cS2G combined SNP-to-gene scores (Gazal 2022), Polygenic Priority Scores (PoPS, Weeks 2023), FLAMES, INQUISIT, DEPICT, and enhancer-gene predictors (ABC, ENCODE-rE2G). Use when narrowing a GWAS lead locus to a candidate causal gene, picking between proximity, eQTL-based, and similarity-based prioritizers, integrating multi-evidence streams (fine-mapping, colocalization, ABC enhancer-gene, distance, chromatin), reconciling discordant L2G vs PoPS calls, prioritizing tissue-specific eQTL evidence, or triangulating across at least three independent lines of evidence for a publication-grade effector-gene nomination.

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Generates 3D conformer ensembles using RDKit ETKDGv3 with knowledge-enhanced distance geometry, MMFF94/UFF force-field optimization, CREST + GFN2-xTB semi-empirical refinement, and macrocycle-aware torsion preferences. Provides explicit decision rules for single vs ensemble conformer use, RMSD pruning, energy windows, conformer count, and force-field choice. Use when preparing 3D ligands for docking, generating descriptor input for 3D QSAR, or sampling macrocycle/peptide conformational ensembles.

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Visualize differential expression results using DESeq2/edgeR built-in functions. Covers plotMA, plotDispEsts, plotCounts, plotBCV, sample distance heatmaps, and p-value histograms. Use when visualizing differential expression results.

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Assesses ChIP-seq quality across antibody specificity, fragmentation, enrichment, replicate concordance, and library complexity. Computes FRiP, NSC/RSC (phantompeakqualtools), library complexity (NRF/PBC1/PBC2), deepTools plotFingerprint (JS distance, AUC, synthetic JS), ChIPQC, IDR with ENCODE Nself/Nt rules, and detects hyper-ChIPable artifacts. Use when validating an antibody, diagnosing failed peak calls, deciding whether to proceed with downstream analysis, grading against ENCODE thresholds, or auditing replicate concordance.

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Analyzes community composition using constrained ordination (CCA, RDA, db-RDA), variance partitioning (varpart), indicator species analysis (indicspecies multipatt), and distance-based environmental gradient methods with vegan. Links species composition to environmental explanatory variables. Use when testing how environmental gradients structure species communities, identifying habitat indicator taxa, or partitioning explained variation among predictors. Not for basic unconstrained ordination and PERMANOVA (see microbiome/diversity-analysis).

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Persistent compounding memory for AI agents. 5 default MCP tools: session_start, session_end, remember, recall, check. Full surface (18 tools) available with --full flag. Two-verb model: inhale (session_start) and exhale (session_end). Correction-first memory with decision trail tracking, watch_for warnings, palace rooms with salience scoring, cross-project insight matching, same-day journal merging, ambient recall hooks. Local markdown only. Zero cloud, zero telemetry, Obsidian-compatible. Optional Supabase backend: when configured via `ar setup supabase`, recall() uses pgvector cosine similarity on OpenAI/Voyage embeddings instead of keyword search — same API, semantic understanding. Gracefully degrades to local search if not configured.

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Break out of a locked problem frame by picking one disciplined move — reframe, provocation (Po), random stimulus, SCAMPER, inversion, structured analogy, constraint play, or family traversal — and committing to it before evaluating. Use when stuck, when options feel narrow or obvious, when iterations produce variations of the same idea, or when the user says "widen this", "break out of", "think differently", "I'm stuck", "feels too obvious", "stress-test the framing", "what am I missing", or holds two related examples and asks what lies between or beyond them. Complements challenging (which evaluates) and convening-experts (which synthesizes viewpoints); this skill generates distance, not judgment.

日本語の概要は準備中です。原文の説明を表示しています。

Master advanced AgentDB features including QUIC synchronization, multi-database management, custom distance metrics, hybrid search, and distributed systems integration. Use when building distributed AI systems, multi-agent coordination, or advanced vector search applications.

日本語の概要は準備中です。原文の説明を表示しています。