「fast」の検索結果

Annotates bacterial and archaeal genomes (isolates, MAGs, plasmids) with Bakta (active versioned databases, NCBI-compliant output) or Prokka (legacy), producing GFF3/GenBank/EMBL/FASTA with INSDC locus tags. Covers Bakta-vs-Prokka-vs-PGAP-vs-DFAST choice, light-vs-full database tiers, translation-table selection (11/4/25), archaeal and leaderless-gene caveats, the small-ORF blind spot, pseudogene-vs-phase-variation, the pangenome re-annotation trap, and submission compliance. Use when annotating a newly assembled prokaryotic genome, choosing an annotation tool, re-annotating a collection for pangenomics, or preparing annotations for NCBI/DDBJ submission.

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Compute genome-to-genome distances (ANI, AAI, dDDH, k-mer Mash) and assign taxonomic classifications using skani (Shaw 2023), FastANI (Jain 2018), pyani / pyANI ANIb / ANIm, OrthoANI (Lee 2016), AAI (amino-acid identity), dDDH via TYGS / GGDC, GTDB-Tk (Chaumeil 2020 standard prokaryote taxonomy), and Mash MinHash (Ondov 2016). Use when delineating prokaryote species (95% ANI threshold; Jain 2018 Nat Commun 9:5114), assigning genomes to GTDB taxonomy with ANI radius, computing genome similarity matrices for clustering, classifying archaea, evaluating MAG (metagenome-assembled genome) species assignment, applying skani for fast metagenomic ANI screening, or reconciling 16S rRNA-based taxonomy with whole-genome ANI.

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Reconstruct ancestral states at internal phylogenetic nodes for sequences (PAML codeml, IQ-TREE --ancestral, GRASP, FastML), discrete traits (corHMM hidden-rate Markov, ape::ace, phytools::make.simmap stochastic mapping, BayesTraits), and continuous traits (phytools::fastAnc, geiger Brownian/OU, RPANDA). Use when designing constructs for ancestral protein resurrection, tracing trait evolution along a tree, performing stochastic character mapping, testing models of trait evolution (BM vs OU vs EB), inferring ancestral genome content via Dollo or DTL reconciliation, or quantifying ancestral-state uncertainty for downstream comparative analyses.

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Use when generating or extending video with Google Veo models on Scenario via MCP: text-to-video, image-to-video from a first frame, first and last frame transitions, reference-to-video (R2V) with asset or style reference images, native audio with dialogue, sound effects, and ambience, negative prompts, seeded reruns, extending a 16:9 clip, or choosing a quality, fast, or lite tier. Keywords: Veo 3.1, Veo 3.1 Fast, Veo 3.1 Lite, Extend Video, Google, T2V, I2V, V2V, 720p, 1080p.

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Builds high-performance async Python APIs with FastAPI and Pydantic V2 including REST endpoints, authentication flows, async SQLAlchemy, and WebSocket endpoints.

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Fast 15-25 minute triage for preliminary EU AI Act classification and compliance assessment. This skill should be used when the user asks to "do a quick AI Act assessment", "check if the AI Act applies to us", "run a preliminary classification", "do an AI Act triage", "quick check", "preliminary assessment", "Schnellprüfung", "Ersteinschätzung", or needs a fast initial assessment before committing to full analysis.

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When you want to extract content from a video — YouTube, Loom, Vimeo, Riverside, Zoom recording, local MP4, X/IG video, anything yt-dlp supports. Three depth modes user picks per invocation — transcript (just words, fast/free), visual (transcript + ffmpeg frame extraction + Claude vision pass on key moments), multimodal (Gemini native video ingestion if $GEMINI_API_KEY set, else dense Claude vision). Uses local Whisper for transcription (MLX-Whisper on Apple Silicon, faster-whisper elsewhere), falls back to platform-provided transcripts when available (Loom, Riverside, YouTube auto-subs). Saves to ~/Documents/videos/<source>-<slug>-<date>/ and optionally captures summary to second-brain raw/ as call-/meeting-/note-. Triggers on "/watch-video <url>," "watch this video," "transcribe this loom," "analyze this video," "summarize this recording," "key moments from this," "what happened in this video." This skill replaces and broadens the prior youtube-transcript skill.

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Expert blueprint for procedural content generation (dungeons, terrain, loot, levels) using FastNoiseLite, random walks, BSP trees, Wave Function Collapse, and seeded randomization. Use when creating roguelikes, sandbox games, or dynamic content. Keywords procedural, generation, FastNoiseLite, Perlin noise, BSP, drunkard walk, Wave Function Collapse, seeding.

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Run nf-core bioinformatics pipelines (rnaseq, sarek, atacseq) on sequencing data. Use when analyzing RNA-seq, WGS/WES, or ATAC-seq data—either local FASTQs or public datasets from GEO/SRA. Triggers on nf-core, Nextflow, FASTQ analysis, variant calling, gene expression, differential expression, GEO reanalysis, GSE/GSM/SRR accessions, or samplesheet creation.

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Fast-forwards through remaining waves end-to-end without stopping for review between waves.

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Optimize NestJS throughput with Fastify adapter, singleton scope enforcement, compression, and query projections. Use when switching to Fastify, diagnosing request-scoped bottlenecks, or profiling API overhead.

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Automate provisioning, signing, and deployment with Fastlane. Use when provisioning iOS apps, managing code signing, or automating deployments with Fastlane.

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Fast codebase search via WarpGrep (20x faster than grep)

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Use Biome in .NET repositories that ship Node-based frontend assets and want a fast combined formatter-linter-import organizer for JavaScript, TypeScript, CSS, JSON, GraphQL, or HTML. USE FOR: biome.json or @biomejs/biome setup; fast frontend formatting and linting; replacing overlapping frontend style tools deliberately. DO NOT USE FOR: ESLint-only plugin coverage; runtime site audits such as headers, accessibility, or browser behavior. INVOKES: inspect the repository context, edit targeted files, and run relevant build, test, lint, or validation commands when changes are made.

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Optimize and improve the performance of slow Entity Framework Core (EF Core) queries: make them generate less SQL, make fewer database round-trips, and return results faster. Use whenever an EF Core or DbContext query or data-access path is slow or should be made faster — whether or not EF Core owns the database schema. For EF Core, not Dapper or raw ADO.NET.

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Use when you need to write fast unit tests for Quarkus applications — including pure tests with @ExtendWith(MockitoExtension.class), @QuarkusTest with @InjectMock for full CDI mock replacement, @InjectSpy for partial CDI bean mocking, REST Assured for resource-focused tests, @ParameterizedTest with @CsvSource / @MethodSource, QuarkusTestProfile for test-specific configuration overrides, and naming conventions (*Test → Surefire, *IT → Failsafe). For framework-agnostic Java use @131-java-testing-unit-testing. This should trigger for requests such as Add or improve unit tests in a Quarkus project; Reduce slow @QuarkusTest usage with Mockito-first tests; Add @InjectSpy partial mocking or QuarkusTestProfile configuration in Quarkus tests; Convert repeated test methods to @ParameterizedTest with @CsvSource or @MethodSource; Write fast pure unit tests for Quarkus services. Part of Plinth Toolkit

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Use when you need to apply Java exception handling best practices — including using specific exception types, managing resources with try-with-resources, securing exception messages, preserving error context via exception chaining, validating inputs early with fail-fast principles, handling thread interruption correctly, documenting exceptions with @throws, enforcing logging policy, translating exceptions at API boundaries, managing retries and idempotency, enforcing timeouts, attaching suppressed exceptions, and propagating failures in async/reactive code. This should trigger for requests such as Exception handling; Use try-with-resources in Java code; Create exception chaining in Java code; Apply fail-fast validation in Java code; Review Java exception taxonomy and propagation. Part of Plinth Toolkit

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Fast Python environment management with uv (10-100x faster than pip). Triggers on: uv, venv, pip, pyproject, python environment, install package, dependencies.

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Python FastAPI development with uv package manager, modular project structure, SQLAlchemy ORM, and production-ready patterns.

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Primary Python toolkit for molecular biology. Preferred for Python-based PubMed/NCBI queries (Bio.Entrez), sequence manipulation, file parsing (FASTA, GenBank, FASTQ, PDB), advanced BLAST workflows, structures, phylogenetics. For quick BLAST, use gget. For direct REST API, use pubmed-database.

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Annotate prokaryotic genomes (bacteria, archaea, viruses) via Prokka's BLAST/HMM pipeline. Identifies CDS, rRNA, tRNA, tmRNA, signal peptides against Pfam, TIGRFAMs, RefSeq. Outputs GFF3, GenBank, FASTA, TSV. Use PGAP for NCBI GenBank submission; Bakta for faster NCBI-compatible annotation.

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Aggregates QC from 150+ bioinformatics tools into one interactive HTML report. Scans FastQC, samtools, STAR, HISAT2, Trim Galore, featureCounts, Kallisto, Salmon, Picard, GATK logs; merges per-sample stats with plots. For NGS pipeline-wide QC. Use FastQC directly for single-sample; MultiQC for multi-sample reporting.

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ENA REST API for sequences, reads, assemblies, and annotations. Portal API search, Browser API retrieval (XML/FASTA/EMBL), file reports for FASTQ/BAM URLs, taxonomy, cross-refs. For multi-DB Python use bioservices; for NCBI-only use pubmed-database or Biopython Entrez.

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Ultra-fast RNA-seq transcript/gene quantification via quasi-mapping (no BAM). Builds a k-mer index from transcriptome FASTA, quantifies in minutes. Outputs TPM/count tables (quant.sf) with optional GC- and sequence-bias correction. Integrates with tximeta/tximport for DESeq2/edgeR. Use STAR when a genome-aligned BAM is needed.

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