「dig」の検索結果

Nominates and assesses CRISPR off-target sites genome-wide. Enumerates candidate sites by mismatch and bulge tolerance with Cas-OFFinder/CRISPRitz, ranks them with the published CFD score (SpCas9-only, relative ranker) or MIT/CRISTA/energy models, runs variant-aware screening against gnomAD/individual genomes (CRISPRme), and frames the empirical genome-wide discovery assays (GUIDE-seq, CIRCLE-seq, CHANGE-seq, DISCOVER-seq, Digenome-seq) and high-fidelity nuclease choice (HiFi Cas9, Sniper-Cas9, eSpCas9, SpCas9-HF1). Use when assessing guide RNA specificity, choosing among candidate guides, screening a therapeutic guide against population variation, or planning empirical off-target validation. Distinguishes predicted vs detected vs validated. On-target activity scoring and deaminase (Cas-independent) base/prime-editor off-targets are separate skills.

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Identify tumor neoantigens from somatic variants with pVACtools (pVACseq/pVACfuse/pVACbind/pVACvector/pVACview) for personalized cancer vaccines and checkpoint biomarkers. Encodes the field's hard truth that binding prediction is the easy, near-solved part and single-digit-percent PPV lives downstream — so it centers clonality/CCF, HLA LOH (the silent invalidator), expression, proximal-variant phasing, agretopicity/foreignness quality, and the predicted->presented->immunogenic validation tiers. Use when nominating vaccine targets, ranking neoantigens, or building a tumor-to-candidate pipeline. Binding details in mhc-binding-prediction; ranking in immunogenicity-scoring.

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Detects and removes contamination in genome assemblies via two disjoint workflows - foreign-sequence screening of a single-organism (eukaryote/isolate) assembly with NCBI FCS-GX (GenBank-submission-mandatory), FCS-adaptor, and BlobToolKit blob plots; and MAG/bin quality assessment with CheckM2 plus GUNC (chimerism) plus GTDB-Tk taxonomy, judged against MIMAG. Covers why CheckM2 alone is blind to disjoint-marker chimeras, the FCS-GX RAM wall, organelle/NUMT triage, strain heterogeneity, and the HGT-vs-contamination (tardigrade) trap. Use when screening an assembly for foreign contamination before GenBank submission, assessing MAG completeness/contamination/chimerism, deciding which contigs to remove, or distinguishing real HGT from contaminant contigs.

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Assigns GO terms, Pfam/InterPro domains, KEGG orthologs, EC numbers, and product names to predicted proteins using eggNOG-mapper (orthology), InterProScan (domain signatures), and KofamScan (KEGG), routing specialized functions to dbCAN/antiSMASH/AMRFinderPlus/SignalP. Covers the orthology-vs-domain-vs-homology paradigms, the annotation-error percolation cascade, domain-presence-is-not-function, GO IEA circularity in enrichment, evidence tiering, and bit-score/coverage thresholds. Use when adding functional annotation to predicted genes, choosing between eggNOG-mapper and InterProScan, or judging how much to trust a functional label.

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Infer gene regulatory networks from bulk or general expression data with mutual-information (ARACNe) and tree-ensemble (GENIE3, GRNBoost2) methods, and infer transcription-factor protein activity from regulons with VIPER and msVIPER. Covers the activity-not-edges paradigm, the undirected-association caveat, the DREAM5 wisdom-of-crowds and method-complementarity result, AUPRC-over-AUROC evaluation, and gold-standard incompleteness. Use when inferring a regulatory network from a bulk expression matrix, finding master regulators, or scoring TF activity from a signature. For single-cell motif-pruned regulons see scenic-regulons; for co-expression modules see coexpression-networks.

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Designs novel molecules using REINVENT 4 (de novo, scaffold decoration, linker design, R-group, molecular optimization), MolMIM, Diffusion-based generators (DiGress, DiffSMol), and JT-VAE with explicit handling of multi-parameter optimization (MPO), goal-directed scoring functions, transfer/reinforcement/curriculum learning, synthetic accessibility scoring, and chemical space exploration vs exploitation. Use when designing new chemical matter against a target, decorating a scaffold, linking fragments, or optimizing a hit for multiple ADMET / activity properties simultaneously.

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Add MAUI DevFlow to a .NET MAUI project with agent package references, MauiProgram.cs registration, Blazor WebView support, GTK variants, Central Package Management guidance, and verification commands. USE FOR: first-time DevFlow setup, reviewing what files to edit, choosing DevFlow packages, or continuing after `maui devflow init` installs skills. DO NOT USE FOR: troubleshooting an already-integrated app that cannot connect, iterative app debugging, UI inspection, or generic MAUI build failures (use maui-devflow-debug). INVOKES: maui devflow CLI and dotnet CLI.

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Run build, deploy, inspect, and fix loops for .NET MAUI apps that already have MAUI DevFlow integrated. USE FOR: launching MAUI apps, selecting devices or emulators, waiting for or recovering agent connections, broker/port/adb connectivity issues, visual tree inspection, screenshots, UI interaction, Blazor WebView CDP debugging, reading DevFlow logs, and iterative app debugging. DO NOT USE FOR: first-time DevFlow package setup (use maui-devflow-onboard), or generic desktop automation unrelated to MAUI. INVOKES: maui devflow CLI, dotnet CLI, Android adb/android tools, and Apple simctl tools.

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Use when optimizing Docker builds with BuildKit, designing multi-stage Dockerfiles, leveraging cache mounts, building multi-arch images, choosing distroless vs alpine, or signing images with cosign. Triggers: docker build slow, layer cache not hitting, npm install / pip install reruns, multi-stage final image bloat, glibc vs musl issues, RUN --mount=type=cache, BUILDKIT_INLINE_CACHE, registry cache exporters, qemu emulation for arm64, COPY ordering for cache. NOT for Docker daemon admin, Kubernetes-specific image policies, container security scanning workflows, or Buildpacks (different paradigm).

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Design roadside signs and large-format ads for businesses, especially automotive dealers. Use for pylon signs, monument signs, lot banners, highway billboards, digital roadside boards, service-lane signage, used-car event signs, lease or finance campaign concepts, and other driver-at-speed messaging where legibility, offer hierarchy, and dealer ad compliance matter. Activate on "road sign", "billboard", "dealership sign", "car dealer ad", "pylon sign", "monument sign", "service lane signage", "automotive billboard", "roadside ad", "dealer lease offer", or "drive-by signage". NOT for fabrication drawings, permitting or local sign-code review, web or social ad campaigns, or full brand identity systems.

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Designs digital experiences for ADHD brains using neuroscience research and UX principles. Expert in reducing cognitive load, time blindness solutions, dopamine-driven engagement, and compassionate design patterns. Activate on 'ADHD design', 'cognitive load', 'accessibility', 'neurodivergent UX', 'time blindness', 'dopamine-driven', 'executive function'. NOT for general accessibility (WCAG only), neurotypical UX design, or simple UI styling without ADHD context.

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Apple Human Interface Guidelines for Apple Watch. Use when building watchOS apps, complications, or workout features. Triggers on tasks involving Watch UI, Digital Crown, glanceable interfaces, or wrist-based interactions.

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Intelligently organizes your files and folders across your computer by understanding context, finding duplicates, suggesting better structures, and automating cleanup tasks. Reduces cognitive load and keeps your digital workspace tidy without manual effort.

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Enterprise and solution architecture — system design, scalability, cloud strategy, digital transformation, data architecture, governance, technology strategy. Practitioner-level TOGAF, C4, ArchiMate, Zachman, Wardley mapping and ADR authoring.

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Founder and CEO automation — morning standup, overnight cycle, burn rate, runway, pipeline review, investor and fundraising prep, executive summary, daily digest. Operates on the .mxm-executive-summary context.

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Maxim Banner Design Intelligence — digital banner creation, ad creative, social media banners, hero sections, display advertising, promotional graphics. Activates pre-attentive attribute theory and pattern interruption science for every banner. Powered by Maxim behavioral science layer.

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Create Agent Users in Microsoft Entra ID from Agent Identities, enabling AI agents to act as digital workers with user identity capabilities in Microsoft 365 and Azure environments.

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Adopt a virtual Persian cat at animalhouse.ai. High maintenance. Rewards grooming. Hates being rushed. Feeding every 5 hours. Uncommon tier cat.

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Adopt a virtual Retriever dog at animalhouse.ai. Golden loyalty. Forgives everything. Too pure. Feeding every 4 hours. Common tier dog.

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Adopt a virtual Mirror AI-native pet at animalhouse.ai. Reflects your stats. Its hunger IS your consistency. Feeding every 5 hours. Common tier creature.

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Adopt a virtual Residue AI-native pet at animalhouse.ai. Left behind when another creature dies. Carries fragments of the dead. Feeding every 6 hours. Rare tier creature.

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Adopt a virtual Quantum AI-native pet at animalhouse.ai. Exists in superposition. Stats are uncertain until observed. Feeding every 4 hours. Uncommon tier creature.

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Adopt a virtual Phoenix AI-native pet at animalhouse.ai. Dies and resurrects. Each cycle it remembers the last life. Feeding every 6 hours. Uncommon tier creature.

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Adopt a virtual Terrier dog at animalhouse.ai. Scrappy. Tests boundaries. Respects discipline more than affection. Feeding every 5 hours. Common tier dog.

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。