「distance」の検索結果

Build clustered heatmaps for expression matrices and other features-by-samples data with rigorous distance/linkage/scaling choices, robust color mapping, optimal leaf ordering, and ComplexHeatmap/pheatmap/seaborn rendering. Covers the ward.D vs ward.D2 trap, the row-vs-column scaling decision, multi-track annotations, oncoPrint, and raster rendering for large matrices. Use when visualizing expression patterns across samples or identifying co-regulated clusters.

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Infers person-to-person transmission from pathogen genomes using outbreaker2, TransPhylo, phybreak, BadTrIP, SCOTTI, BEASTLIER, and SNP-distance / cluster-picker approaches (HIV-TRACE for HIV; transcluster). Defines outbreak clusters using pathogen-specific SNP thresholds (NOT a universal cutoff -- TB <=12 SNPs; MRSA <=15; C. difficile <=2; Klebsiella <=21), models within-host diversity and transmission bottlenecks, integrates contact-tracing data, distinguishes generation from serial interval, and attributes source via Bayesian source attribution (islandR). Use when investigating outbreaks for who-infected-whom, defining SNP-cluster outbreak definitions, accounting for unsampled intermediates, choosing between outbreaker2 (rich epi data) and TransPhylo (genomic-only after a dated phylogeny), running source attribution between host populations, calling HIV-TRACE thresholds appropriate to the local subtype, or distinguishing recent transmission from reactivation in TB or chronic HIV.

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Creates DE-specific diagnostic and result visualizations using DESeq2/edgeR built-in functions and lightweight ggplot2 wrappers. Covers MA plot (with the shrunken-LFC compression effect), volcano (with the apeglm caveat that p-values are unchanged), PCA on VST/rlog (never raw counts), sample distance heatmaps, top-DE-gene heatmaps with the row-scaling trap, dispersion / BCV plot interpretation, p-value histogram diagnostics, plotCounts for individual genes, blind=TRUE vs FALSE rationale, and the n=3 visualization stake. Use when generating DE diagnostic plots, choosing VST vs rlog for visualization, troubleshooting suspicious plot patterns (shifted MA cloud, batch-dominated PCA, anti-conservative p-value histogram), or building a standard QC figure panel.

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。

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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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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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.

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。

Process, analyze, and visualize geospatial data at scale. Handles drone imagery, GPS tracks, GeoJSON optimization, coordinate transformations, and tile generation. Use for mapping apps, drone data processing, location-based services. Activate on "geospatial", "GIS", "PostGIS", "GeoJSON", "map tiles", "coordinate systems". NOT for simple address validation, basic distance calculations, or static map embeds.

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Get detailed routing between two points with distance, duration, and optional turn-by-turn directions.

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。

Analyze Arccos Golf performance data including club distances, strokes gained metrics, scoring patterns.

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Queries Certificate Transparency logs via crt.sh and pycrtsh to detect phishing domains, unauthorized certificate issuance, and shadow IT. Monitors newly issued certificates for typosquatting and brand impersonation using Levenshtein distance. Use for proactive phishing domain detection and certificate monitoring.

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Use when working with Chroma — chroma vector database management, collection inspection, embedding analysis, and query performance monitoring. Covers collection metadata, document counts, distance metrics, index health, and tenant/database configuration. Read this skill before any Chroma operations.

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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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Navigate the gap between what you can see and what you can make. The Ira Glass gap. Use when a designer is frustrated by the distance between their taste and their output, when mentoring someone through a creative plateau, or when someone is considering quitting because their work doesn't match their vision.

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Implement, review, or improve maps and location features in iOS/macOS apps using MapKit and CoreLocation. Use when working with Map views, annotations, markers, polylines, user location tracking, geocoding, reverse geocoding, search/autocomplete, directions and routes, geofencing, region monitoring, CLLocationUpdate async streams, or location authorization flows. Also use when working with maps, coordinates, addresses, places, directions, distance calculations, or location-based features in Swift apps.

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。

SEO + GEO (AI-search) + brand-entity desk (Busabase App-in-Skill) — wired to Google Search Console for a dashboard over search analytics and an agent-prepared SEO opportunities review queue, plus an AI-visibility tracker (are we cited in ChatGPT / Perplexity / Gemini / Claude / Copilot answers), a GEO content-optimization queue gated by geo-qa, and an entity / knowledge-panel readiness checklist. Use when the user invokes $kelly-seo or /kelly-seo, mentions SEO, Google Search Console, GSC, search analytics, search performance, queries, keywords, rankings, positions, impressions, clicks, CTR, striking-distance queries, title/meta rewrites, content briefs, internal links, SEO opportunities review, GEO, generative engine optimization, AI search, AI visibility, being cited by AI answer engines, ChatGPT/Perplexity/Gemini/Claude/Copilot citations, brand entity, knowledge panel, Wikidata, schema.org, or entity readiness.

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。

Queries Certificate Transparency logs via crt.sh and pycrtsh to detect phishing domains, unauthorized certificate issuance, and shadow IT. Monitors newly issued certificates for typosquatting and brand impersonation using Levenshtein distance. Use for proactive phishing domain detection and certificate monitoring.

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。

Build clustered heatmaps for expression matrices and other features-by-samples data with rigorous distance/linkage/scaling choices, robust color mapping, optimal leaf ordering, and ComplexHeatmap/pheatmap/seaborn rendering. Covers the ward.D vs ward.D2 trap, the row-vs-column scaling decision, multi-track annotations, oncoPrint, and raster rendering for large matrices. Use when visualizing expression patterns across samples or identifying co-regulated clusters.

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。

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.

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。

Python library for working with geospatial vector data including shapefiles, GeoJSON, and GeoPackage files. Use when working with geographic data for spatial analysis, geometric operations, coordinate transformations, spatial joins, overlay operations, choropleth mapping, or any task involving reading/writing/analyzing vector geographic data. Supports PostGIS databases, interactive maps, and integration with matplotlib/folium/cartopy. Use for tasks like buffer analysis, spatial joins between datasets, dissolving boundaries, clipping data, calculating areas/distances, reprojecting coordinate systems, creating maps, or converting between spatial file formats.

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。

End-to-end Hi-C analysis workflow from FASTQ to compartments, TADs, and loops, with the decision of WHICH features the sequencing depth can support. Covers pairtools read-pair processing and library QC, cooler matrices, ICE balancing and distance-decay expected, A/B compartments, TAD boundaries, loop calling, and the routing of HiChIP/PLAC-seq/Capture Hi-C to protein-directed loop callers. Use when processing Hi-C data end to end, deciding a resolution for a given depth, or choosing between bulk-Hi-C and protein-directed loop calling.

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。

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.

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。

Reads and summarises ScenarioRunner output — the criteria pass/fail tables from --output/--file, the machine-readable --json and --junit result files, and the criteria JSON written alongside a --record recording — and runs the metrics module (metrics_manager.py) to compute custom measurements over a recorded run offline, without the simulator. Use when the user asks "did the scenario pass", "why did it fail", "summarise these results", "compare these runs", or wants distance/speed/lane metrics from a recording.

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。