Results for “fasta”

Use when profiling nucleotide content (AT/GC percentages, base counts) of genomic intervals against a FASTA reference.

Detect promoter regions in DNA sequences by calling the Genomic Intelligence G0 transformer (GENA-LM BERT Large) hosted API. Returns per-window promoter probabilities and called regions as a report and JSON, from a single FASTA input.

Use when doing lightweight FASTA/FASTQ transformations such as conversion, subsampling, subsequence extraction, trimming, or quick QC with seqtk.

Use when converting RNA connectivity-table (`.ct`) files into extended FASTA with dot-bracket structures, optionally removing pseudoknots or modified bases.

Use when hashing FASTA records and comparing ordered versus order-insensitive sequence digests instead of taking a single whole-file MD5.

Use when converting NCBI XML sequence records to FASTA format, typically after fetching data with efetch from the Entrez Direct toolkit.

Genomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, calculate coverage, for NGS data processing pipelines.

Genomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, calculate coverage, for NGS data processing pipelines.

Distributed task queue system for Python enabling asynchronous execution of background jobs, scheduled tasks, and workflows across multiple workers with Django, Flask, and FastAPI integration.

Genomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, calculate coverage, for NGS data processing pipelines.

Provides RESTful API design patterns and best practices for creating endpoints, designing APIs, and implementing routes.

Provides RESTful API design patterns and best practices for creating endpoints, designing APIs, and implementing routes.

Genomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, calculate coverage, for NGS data processing pipelines.

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

Orchestrates end-to-end software development from scaffolding to deployment, covering frontend, backend, database, testing, and CI/CD workflows.

Python data validation using type hints and runtime type checking with Pydantic v2's Rust-powered core for high-performance validation in FastAPI, Django, and configuration management.

Configures Azure Monitor Application Insights with OpenTelemetry auto-instrumentation for Python applications in one line.

Master Python 3.12+ with modern features, async programming, performance optimization, and production-ready practices. Expert in the latest Python ecosystem including uv, ruff, pydantic, and FastAPI.

Build production-ready LLM applications, RAG systems, and intelligent agents with architecture design, model selection, and cost controls.

Kit de ferramentas para arquivos genômicos. Leia/escreva alinhamentos SAM/BAM/CRAM, variantes VCF/BCF, sequências FASTA/FASTQ, extraia regiões, calcule cobertura, para pipelines de processamento de dados NGS.

Master Python 3.12+ with modern features, async programming, performance optimization, and production-ready practices. Expert in the latest Python ecosystem including uv, ruff, pydantic, and FastAPI.

Provides reference documentation and code patterns for using Biopython to handle biological sequences, file formats, database access, alignments, structures, and phylogenetics.

Predicts enhancer activity in DNA sequences using the hosted Genomic Intelligence G0 DeepSTARR model, returning per-window activity scores.

Use when aligning short reads to a reference genome or indexed sequence database. Suitable for mapping FASTQ/FASTA reads in paired-end or single-end mode to produce SAM output.

Python logging with the standard library logging module and structlog. Covers log levels, handlers, formatters, structured logging, and production best practices for FastAPI/Django applications. USE WHEN: user mentions "python logging", "fastapi logging", "django logging", asks about "how to log in python", "python logging module", "logging configuration python" DO NOT USE FOR: Node.js logging - use `nodejs-logging` instead, Java logging - use `slf4j` or `logback`, structlog-specific - use `structlog` skill for deep dive

Write and review modern Python 3.12+ code with async patterns, performance optimization, and production-ready practices using the latest ecosystem tools.

Generates OpenAPI 3.1 documentation from an API codebase, auto-detecting frameworks, extracting routes and schemas, and setting up interactive docs.

Discovers and executes bioinformatics tools from the Galaxy ecosystem via natural language, with multi-signal scoring, workflow templates, and reproducibility bundles.

Predicts gene and transcript structure from a DNA sequence using the hosted Genomic Intelligence API, producing a report and JSON output.

Apache Avro data serialization reference. Covers schema definition, primitive and complex types, logical types, schema evolution and compatibility rules, Confluent Schema Registry, Python/fastavro usage, Kafka integration, and Spark/Flink connectors.

Track ML experiments with open-source run logging, local or self-hosted dashboards, and media visualization using SwanLab.

Use this when designing or scaffolding a Python API service, endpoint structure, request validation approach, handler layout, or API-specific service patterns in FastAPI, Flask-style, or similar Python backends.

> ⚠️ **AUTHORIZED USE ONLY** — This skill is intended for authorized security professionals only. Use only against systems you own or have explicit written permission to test. Unauthorized use may violate applicable laws.

Analyzes natural language requests to determine project type, select a tech stack, plan structure, and coordinate specialized agents for building full-stack applications.

Python language (3.10-3.14). Covers typing, async, and modern patterns. Use when writing Python applications. USE WHEN: user mentions "python", "type hints", "dataclasses", "async/await", asks about "asyncio", "context managers", "match statement", "walrus operator", "PEP 695", "type parameter", "generic" DO NOT USE FOR: FastAPI framework - use `backend-fastapi` skill instead DO NOT USE FOR: Django framework - use Django-specific skill DO NOT USE FOR: Package management - use `python-packaging` skill DO NOT USE FOR: Linting/type checking config - use `python-quality` skill

Use when you need to remove adapter sequences from high-throughput sequencing reads, trim low-quality bases, or filter reads by length. Supports single-end and paired-end FASTQ/FASTA input with error-tolerant adapter matching.