「cro」の検索結果

Tests genotype-environment associations and identifies adaptive loci while correcting for the four-confound landscape (structure, demography, background selection, sampling design) using LFMM2 with mandatory K via sNMF cross-entropy elbow (LEA 3), BayPass Core/AUX/C2/IS with Omega covariance matrix, RDA / pRDA for polygenic adaptation (Forester 2018; requires imputed genotypes), OutFLANK with trimmed FST null, pcadapt, gradient forests (Ellis-Smith-Pitcher 2012, NOT mis-cited Ellis-Manel), Capblancq & Forester 2021 RDA Swiss-army-knife, genomic-offset prediction with Lind & Lotterhos 2025 three-regime caveat, Lotterhos-Whitlock sampling optima, Wang & Bradburd 2014 IBD vs IBE, and Circuitscape + ResistanceGA. Use when identifying adaptive loci across gradients, choosing K for LFMM2, deciding among GEA methods, predicting maladaptation with the novel-environment caveat, distinguishing IBD vs IBE, or optimizing sampling design.

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Bulk-query Ensembl BioMart (and other BioMart instances) for cross-database ID mapping, gene/transcript/exon coordinates, and ortholog tables. Use when batch-converting Ensembl IDs to other namespaces (HGNC, RefSeq, UniProt, Entrez), pulling gene coordinate tables for thousands of genes, building ortholog wide-tables across species, or replacing slow Ensembl REST loops with one-shot bulk export. Encodes BioMart's XML query format, R biomaRt vs Python pybiomart trade-off, mart-vs-dataset hierarchy, and the URL endpoint that's BioMart-specific (separate from rest.ensembl.org).

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Runs JACKS (Joint Analysis of CRISPR/Cas9 Knockout Screens; Allen et al 2019 Genome Research) which models per-sgRNA log-fold-change as the product of a treatment-dependent gene-essentiality term and a treatment-independent guide-efficacy term. Covers the Bayesian decomposition math, the hierarchical efficacy prior shared across screens performed with the same library, when JACKS outperforms MAGeCK (multi-screen joint analysis, libraries with broad efficacy variance) and when it does not (single screen, novel libraries with no prior efficacy), library-reuse efficacy transfer, downstream essentiality interpretation, and the 2.5x sample-size reduction enabled by efficacy-aware testing. Use when running multiple screens with the same library, when guide-level noise is suspected to dominate per-gene signal, when reusing published essentiality reference screens for efficacy priors, or when comparing screens performed across cell lines that share library but differ biologically.

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Identify differentially bound regions across CLIP-seq conditions (knockdown vs control, treatment vs vehicle, disease vs healthy) using DEWSeq (sliding-window DESeq2), Flipper (Skipper-downstream), ASpeak, edgeR, or limma-voom. Use when computing condition-level changes in RBP binding intensity, choosing peak-level vs window-level vs crosslink-level testing, designing replicate experiments, or distinguishing biological binding shifts from technical confounders.

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Annotate CLIP-seq peaks or crosslink sites to RNA features (5'UTR, CDS, 3'UTR, intron, splice junction, snoRNA, tRNA, ncRNA, repeat elements) with ChIPseeker, RCAS, RBP-Maps (Yeo splicing regulatory maps), and bedtools, applying feature-priority hierarchies, transcript-context resolution, and metagene aggregation. Use when characterizing where in transcripts an RBP binds, comparing peak distribution across regions, generating splicing-regulatory maps relative to alternative-splicing events, or distinguishing exonic vs intronic vs UTR binding.

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Align preprocessed CLIP-seq reads (eCLIP, iCLIP, iCLIP2, PAR-CLIP) to genome with STAR or bowtie2 using crosslink-preserving parameters, choosing between unique-mapper-only and multi-mapper-aware alignment for repeat-binding RBPs, deciding STAR vs HISAT2 memory trade-offs, and applying ENCODE-compatible filters. Use when turning preprocessed CLIP FASTQ into a deduplicated, MAPQ-filtered BAM ready for peak calling or crosslink-site detection.

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Identifies super-enhancers from H3K27ac, MED1, or BRD4 ChIP-seq using ROSE, ROSE2, LILY, HOMER -style super, and ENCODE dELS cross-referencing. Handles peak stitching parameters, ranking choices, hockey-stick inflection, marker choice (H3K27ac vs MED1/BRD4), and cross-condition comparison with spike-in normalization. Constructs core regulatory circuitry (Saint-Andre 2016) from SE-encoded TFs. Use when identifying cell-identity / cancer-associated regulatory domains, comparing super-enhancers between conditions, identifying master transcription factor networks, or predicting BET-inhibitor responsiveness.

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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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Performs structure-based virtual screening using AutoDock Vina, SMINA, GNINA (CNN scoring), and DiffDock-L hybrid workflows with explicit choice rules across rigid vs flexible docking, cross-docking vs self-docking, binding-site detection (P2Rank, fpocket), receptor preparation (PDB2PQR, PROPKA), ligand preparation (meeko, OpenBabel), and ultralarge-library screening (ZINC22, Enamine REAL). Use when screening chemical libraries against a protein target to find candidate binders, ranking docking poses, or selecting a docking workflow for a specific scenario.

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Analyzes alternative splicing from PacBio Iso-Seq (HiFi, Kinnex/MAS-Iso-seq) and Oxford Nanopore (direct cDNA, direct RNA, R10.4.1+) long-read RNA-seq with full-isoform resolution. Tools include FLAIR (correct/collapse/quantify/diffSplice for PacBio + ONT), IsoQuant (de-novo or annotation-guided isoform discovery 2024 SOTA), Bambu (annotation-aware Bayesian discovery + quantification with Novel Discovery Rate), SQANTI3 (isoform classification: FSM/ISM/NIC/NNC + artifact flags), rMATS-long (event calling on long-read isoforms), and minimap2 (-ax splice:hq for HiFi; -ax splice -k14 for ONT cDNA; add -uf only for direct RNA or stranded cDNA preps). Solves microexon detection, recursive splicing, complex multi-exon isoforms, and DTU without transcript-quantification uncertainty. Use when short-read AS limitations (anchor length, complex isoforms, microexons, recursive splicing, transcript ambiguity) demand full-isoform resolution.

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Implement, review, or improve SwiftUI Liquid Glass effects for iOS 26+. Covers glassEffect modifier, GlassEffectContainer, glass button styles, glass toolbar/tab bar, static status badges vs interactive controls, morphing transitions, tinting, interactive glass, ToolbarSpacer, scrollEdgeEffectStyle, backgroundExtensionEffect, and availability gating. Use when asked about Liquid Glass, glass buttons, glassEffect, GlassEffectTransition, glassEffectID, glassEffectUnion, scroll edge effects, or adopting iOS 26 design.

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Transcribe speech to text using Apple's Speech framework. Use when implementing live microphone transcription with AVAudioEngine, recognizing recorded audio files, handling speech and microphone authorization, choosing on-device vs server-backed SFSpeechRecognizer behavior, or adopting SpeechAnalyzer, SpeechTranscriber, DictationTranscriber, AssetInventory, and async result streams on iOS 26+.

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Implements keyboard, directional, and scene-level focus behavior across SwiftUI and UIKit. Use when managing @FocusState, defaultFocus, focused values, focusable interactions, focus sections, tvOS geometric focus and Siri Remote navigation, watchOS Digital Crown input, visionOS connected-device focus versus gaze hover/input targets, macOS key view loop and Full Keyboard Access, focus restoration after presentation changes, custom focus routing with UIFocusGuide, or debugging focus with UIFocusDebugger.

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Use when doing ANY task involving Supabase. Triggers: Supabase products (Database, Auth, Edge Functions, Realtime, Storage, Vectors, Cron, Queues); client libraries and SSR integrations (supabase-js, @supabase/ssr) in Next.js, React, SvelteKit, Astro, Remix; auth issues (login, logout, sessions, JWT, cookies, getSession, getUser, getClaims, RLS); Supabase CLI or MCP server; schema changes, migrations, declarative schemas, security audits, Postgres extensions (pg_graphql, pg_cron, pg_vector); debugging and troubleshooting errors or unexpected behavior on Supabase projects (HTTP errors, Postgres errors, RLS surprises, permission denied, schema cache issues, timeouts, Edge Function crashes, Realtime drops, Storage failures) and reading or querying logs (Logs Explorer, ClickHouse).

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Perform time-frequency analysis in MATLAB using CWT, STFT, synchrosqueezing, reassignment, wavelet coherence, cross spectrogram, EMD/VMD, multiresolution analysis, and time-frequency filtering. Triggers on: time-frequency, spectrogram, scalogram, cwt, stft, istft, fsst, wsst, wcoherence, xspectrogram, modwt, modwtmra, modwpt, emd, vmd, hht, tffilt, dgt, gabor, instantaneous frequency, synchrosqueezing, reassignment, ridge extraction, wavelet coherence, cross spectrum, mode decomposition, signal decomposition, time-frequency filtering.

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Smart triggered RF capture on NI USRP radios with Wireless Testbench — record only when a signal of interest appears, not continuously (triggered spectrum sensing). Use energy detection to capture when signal power rises above the noise floor, or preamble detection to cross-correlate against a known sequence (WLAN L-LTF, 5G NR PSS/SSS, LTE PSS, Zadoff-Chu, custom protocols) and capture only when that protocol's preamble is detected. Use when implementing triggered (wake-on-signal) capture or spectrum sensing, capturing protocol-based signals via cross-correlation, calibrating detection thresholds (plotDetectionSignals / plotThreshold), scanning frequency bands for activity, or building transmit-then-detect workflows.

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Use this skill to classify tabular data end-to-end in MATLAB — load a dataset, prepare and clean it, select promising classifiers, train them, and compare accuracies with cross-validation, holdout, or hyperparameter optimization plus statistical tests. TRIGGER when: user asks to classify tabular data, pick classifiers for a dataset, compare classifier accuracy, run cross-validation or a holdout evaluation, or find the best model with statistical uncertainty. DO NOT TRIGGER when: user has non-tabular inputs (images, sequences, time series), wants a regression model, is training a specific neural network architecture (use matlab-train-network), or wants cost-sensitive learning or an arbitrary class-prior vector (this skill only supports the built-in uniform-prior toggle for imbalanced data).

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Load this first for any task involving images, pictures, photos, scans, frames, volumes, or visual data — including reading, writing, filtering, enhancing, denoising, sharpening, deblurring, thresholding, segmenting, masking, detecting, finding or counting objects, removing backgrounds, measuring, comparing, registering, stitching, aligning, cropping, resizing, transforming, or analyzing. Use for image I/O (TIFF, PNG, JPEG, RAW, HDR), histograms, edge detection, color processing, morphology, geometric transforms, deep learning for images, quality assessment, and 3-D volume processing. Also triggers when users describe image problems (dark, noisy, blurry, low contrast, uneven lighting, hazy, color cast) or data exploration tasks (folder of images, characterize data, understand format). Handles microscopy (cells, particles) and general scientific imaging. Routes to sibling skills for medical imaging (DICOM, NIfTI), hyperspectral data, and visual inspection.

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Exchange data between Excel and MATLAB using Spreadsheet Link VBA macros and worksheet functions. Use when writing Excel VBA macros that call MLPutMatrix, MLGetMatrix, MLPutVar, MLGetVar, MLPutRanges, MLEvalString, MLGetFigure, or MatlabRequest.

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Programmatically author RoadRunner scenarios from MATLAB using roadrunnerAPI. Use when adding actors, creating routes, building scenario logic (phases, conditions, actions), placing vehicles/pedestrians, defining cut-in/crossing/ follow scenarios, or any programmatic scenario creation in RoadRunner. Triggers on: roadrunnerAPI, scenario authoring, add actor, create route, phase logic, cut-in scenario, pedestrian crossing, scenario from MATLAB.

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Audit and harden your SaaS tool stack — enforce SSO, review OAuth grants, manage shadow IT, and secure admin accounts across Slack, GitHub, Google Workspace, and AWS. Use when tightening security across company SaaS tools.

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Upsell and cross-sell strategy — product recommendations, cart upsells, post-purchase offers, bundles

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Cross-border e-commerce expansion advisor. Scores target markets on 8 weighted dimensions (market size, ecommerce penetration, competition, regulatory complexity, logistics infrastructure, payment ecosystem, cultural distance, IP protection), compares 5 fulfillment models with cost and transit data, provides country-by-country tax/duty compliance guides (EU VAT/IOSS, UK VAT, US sales tax, CA GST, AU GST, JP consumption tax), maps local payment preferences by market, and builds a phased expansion roadmap. No API key required.

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Cross-platform ecommerce competitor analysis and strategic intelligence. Multi-channel presence evaluation, strategy assessment, positioning analysis, and competitive benchmarking. Use when the user asks about competitor analysis, competitive research, market analysis, or competitive intelligence across platforms.

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