「fasta」の検索結果

Predicts regulatory features, gene structure, and expression directly from DNA sequence using Genomic Intelligence's hosted transformer DNA language models — no local GPU or model weights. Six tasks over a REST API and a hosted MCP server (keyless public demo): promoter regions, splice donor/acceptor sites, enhancer activity, chromatin state, sequence-to-expression (log TPM), and de-novo gene annotation, plus a composite find-genes-then-predict-expression workflow. Use when the user has a gene symbol, a genomic region, or a DNA/FASTA sequence and wants any of these predictions, mentions Genomic Intelligence, genomicintelligence.ai, api.genomicintelligence.ai, or mcp.genomicintelligence.ai.

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Make sure to use this skill whenever the user mentions anything related to Danish job searching, job listings, job vacancies, employment opportunities in Denmark, or the Danish government job portal — even if they don't mention jobnet.dk explicitly. Also invoke this skill for questions about specific job titles, occupations, employers, or regions in a Danish employment context. This skill covers the official Danish public job portal operated by STAR (Styrelsen for Arbejdsmarked og Rekruttering). Trigger phrases include: danish jobs, danish job search, jobnet, jobnet.dk, find job denmark, danish employment, job i danmark, job på jobnet, offentlige job, stillinger i det offentlige, public sector jobs denmark, government jobs denmark, STAR jobs, job ledige stillinger, ledig stilling, søg job, job opslag, job vacancy denmark, stillingopslag, jobopslag, sygepleje job, ingeniør job, lærer job, pædagog job, it-job denmark, jobs in copenhagen, jobs in aarhus, jobs in odense, deltidsjob, fuldtidsjob, fastansættelse, tidsbegrænset ansættelse, fleksjob, sygeplejerske job, social worker job denmark, occupation search denmark, esco occupation, job deadline, ansøgningsfrist, søg efter job, full time job denmark, part time job denmark.

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Use when the user says 'build me an app', 'create a project from this spec', 'scaffold a new repo', 'generate a starter', 'turn this idea into code', 'bootstrap a project', 'I have requirements and need a codebase', or provides a natural-language project specification and expects a complete, runnable repository. Stack-agnostic: Next.js, FastAPI, Rails, Go, Rust, Flutter, and more.

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Provides guidance for experiment tracking with SwanLab. Use when you need open-source run tracking, local or self-hosted dashboards, and lightweight media logging for ML workflows.

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Use when designing, implementing, debugging, or reviewing Nexent relational schemas, FastAPI endpoints, backend services, database access, SQL migrations, or backend/SDK configuration. Includes table/field naming, types, JSONB boundaries, audit fields, keys, and indexes even before code paths exist. Skip frontend-only work and unrelated SDK algorithms.

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Structure prediction for protein, nucleic-acid, and small-molecule complexes with the Chai-1 foundation model (Chai Discovery 2024, github.com/chaidiscovery/chai-lab). Reach for this skill to predict an antibody-antigen or protein-ligand complex from a single FASTA, to re-fold designed binders as an AlphaFold-multimer alternative, or to drive co-folding from Python for batched campaigns on a GPU.

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Generates RESTful API documentation (OpenAPI 3.0 / Swagger spec) by scanning route definitions in code for Flask, FastAPI, Express, Gin, and other frameworks. Trigger when users ask about API documentation, OpenAPI, Swagger, endpoint docs, generating docs from code, or extracting endpoints.

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Direct REST API access to UniProt. Protein searches, FASTA retrieval, ID mapping, Swiss-Prot/TrEMBL. For broader biological evidence lookup across databases, use bio-database-evidence. Use this for direct HTTP/REST work or UniProt-specific control.

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Python interface to OpenMS for mass spectrometry data analysis. Use for LC-MS/MS proteomics and metabolomics workflows including file handling (mzML, mzXML, mzTab, FASTA, pepXML, protXML, mzIdentML), signal processing, feature detection, peptide identification, and quantitative analysis. Apply when working with mass spectrometry data, analyzing proteomics experiments, or processing metabolomics datasets.

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Biological data toolkit. Sequence analysis, alignments, phylogenetic trees, diversity metrics (alpha/beta, UniFrac), ordination (PCoA), PERMANOVA, FASTA/Newick I/O, for microbiome analysis.

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Primary retained Python toolkit for molecular biology sequence work. Preferred for sequence manipulation, FASTA/FASTQ/GenBank parsing, Bio.Entrez, BLAST workflows, alignments, structures, and phylogenetics. For biological database evidence lookup, use bio-database-evidence. For single-cell workflows use scanpy. For direct literature REST API, use pubmed-database.

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Generate multiple sequence alignments (MSAs) for protein sequences using the ColabFold MSA-Search NIM. Use for homolog search, UniRef30/ColabFold env searches, A3M or FASTA alignments, paired MSA search for complexes, PDB70 structural templates, hosted NVIDIA API calls, or local Docker deployment. For local deployment, download the databases in parallel with aria2c and launch via NIM_MODEL_NAME (the recommended default fast path, ~14 min vs over 80 min for the built-in downloader); a plain docker run uses the slow built-in downloader.

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Use this skill when building, deploying, evaluating, debugging, or measuring latency for the DeepStream SOP Inference Microservice — a GPU-accelerated FastAPI service that detects whether operators perform assembly-line steps in order via event boundary detection (GEBD) plus VLM classification. Trigger even if the user does not name it: verify operator step sequence, detect missing or out-of-order SOP steps, score factory/work-cell video for procedure compliance, run VLM-based SOP checking on industrial cameras, or call /v1/chat/completions with a file, RTSP, or Basler camera. Also trigger for its internals: SOPVideoProcessor, DeepStream GEBD model (e.g. DDM) via Triton CAPI, nvds_custom_postprocess, Cosmos Reason 1/2 vLLM, SSE streaming, Kafka NvProto/JSON output, Basler/Pylon camera + emulation, Docker compose, chunk-level latency. Do NOT trigger for generic DeepStream pipelines, object detection/tracking, NIM imports, or video summarization.

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Run ProteinMPNN inverse folding via NVIDIA NIM to design protein sequences for a target backbone. Sends user-provided PDB files and design parameters to NVIDIA's hosted API, authenticated with an environment API key, or to a user-selected local NIM. Use for sequence design, backbone redesign, fixed chains and residues, omit_AAs, sampling temperature, soluble model, local Docker, and multi-FASTA output.

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Searches for homologous protein sequences using MMseqs2 (fast, default) or BLAST (comprehensive, fallback). Trigger this whenever the user provides a protein sequence or FASTA file and asks to find homologues, sequence matches, or wants to infer protein function based on sequence similarity, but not when the user wants to infer protein function based on structural similarity.

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Queries the UniBind database for experimentally validated transcription factor (TF) binding sites. Use when retrieving direct TF-DNA interaction datasets, downloading binding site coordinates (BED/FASTA) for local analysis, or listing available datasets by species, cell line, or TF name. Don't use to query specific intervals, locations, genes, motif models or expression data.

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Security-focused code review checklist and automated scanning patterns. Use when reviewing pull requests for security issues, auditing authentication/authorization code, checking for OWASP Top 10 vulnerabilities, or validating input sanitization. Covers SQL injection prevention, XSS protection, CSRF tokens, authentication flow review, secrets detection, dependency vulnerability scanning, and secure coding patterns for Python (FastAPI) and React. Does NOT cover deployment security (use docker-best-practices) or incident handling (use incident-response).

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Build Azure Cosmos DB NoSQL services with Python/FastAPI following production-grade patterns. Use when implementing database client setup with dual auth (DefaultAzureCredential + emulator), service layer classes with CRUD operations, partition key strategies, parameterized queries, or TDD patterns for Cosmos. Triggers on phrases like "Cosmos DB", "NoSQL database", "document store", "add persistence", "database service layer", or "Python Cosmos SDK".

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Generate AI-powered podcast-style audio narratives using Azure OpenAI's GPT Realtime Mini model via WebSocket. Use when building text-to-speech features, audio narrative generation, podcast creation from content, or integrating with Azure OpenAI Realtime API for real audio output. Covers full-stack implementation from React frontend to Python FastAPI backend with WebSocket streaming.

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Read biological sequence files (FASTA, FASTQ, GenBank, EMBL, ABI, SFF) using Biopython Bio.SeqIO. Use when parsing sequence files, iterating multi-sequence files, random access to large files, or high-performance parsing.

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Track bacterial strains using MASH, sourmash, fastANI, and inStrain. Compare genomes, detect contamination, and monitor strain-level variation. Use when needing sub-species resolution for outbreak tracking, transmission analysis, or within-host strain dynamics.

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Convert between sequence file formats (FASTA, FASTQ, GenBank, EMBL) using Biopython Bio.SeqIO. Use when changing file formats or preparing data for different tools.

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Generate consensus FASTA sequences by applying VCF variants to a reference using bcftools consensus. Use when creating sample-specific reference sequences or reconstructing haplotypes.

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Read, write, and convert multiple sequence alignment files using Biopython Bio.AlignIO. Supports Clustal, PHYLIP, Stockholm, FASTA, Nexus, and other alignment formats for phylogenetics and conservation analysis. Use when reading, writing, or converting alignment 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。