DevOps & Infra

holobiomicslab Skill

Use when you have raw IMC (protein imaging) and SIMS (metabolite imaging) data from tissue regions that require spatial co-registration, single-cell-level intensity quantification, and joint analysis of protein–metabolite relationships.

holobiomicslab Skill

Use when when you have a multi-step computational chemistry or molecular modeling pipeline (3+ sequential or parallel stages) that must process many molecules, each requiring repeated tool invocations with different parameters, and you need reproducibility, fault tolerance, and the ability to.

holobiomicslab Skill

Use when you have raw or minimally processed single-cell RNA-seq expression data loaded into an AnnData object (dense, sparse, or Dask-backed array as X), and you need to apply standardized preprocessing transformations (normalization, filtering, PCA) before downstream analysis such as clustering.

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Squirrel — Full-Cycle Software Development Skill workflow skill. Use this skill when the user needs Full-cycle AI coding skill: plans, builds, tests, lints, fixes bugs, and writes production-grade docs. Auto-detects project state and adapts its 8-phase pipeline and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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AMAZON ALEXA — Voz Inteligente com Claude workflow skill. Use this skill when the user needs Integracao completa com Amazon Alexa para criar skills de voz inteligentes, transformar Alexa em assistente com Claude como cerebro (projeto Auri) e integrar com AWS ecosystem (Lambda, DynamoDB, Polly, Transcribe, Lex, Smart Home) and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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AppDeploy Skill workflow skill. Use this skill when the user needs Deploy web apps with backend APIs, database, and file storage. Use when the user asks to deploy or publish a website or web app and wants a public URL. Uses HTTP API via curl and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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cdk-patterns workflow skill. Use this skill when the user needs Common AWS CDK patterns and constructs for building cloud infrastructure with TypeScript, Python, or Java. Use when designing reusable CDK stacks and L3 constructs and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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Cloud/DevOps Workflow Bundle workflow skill. Use this skill when the user needs Cloud infrastructure and DevOps workflow covering AWS, Azure, GCP, Kubernetes, Terraform, CI/CD, monitoring, and cloud-native development and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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EarLLM One — Build & Maintain workflow skill. Use this skill when the user needs Build, maintain, and extend the EarLLM One Android project — a Kotlin/Compose app that connects Bluetooth earbuds to an LLM via voice pipeline and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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File Uploads & Storage workflow skill. Use this skill when the user needs Expert at handling file uploads and cloud storage. Covers S3, and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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Nx Workspace Management workflow skill. Use this skill when the user needs Configure, explore, and optimize Nx monorepo workspaces. Use when setting up Nx, exploring workspace structure, configuring project boundaries, analyzing affected projects, optimizing build caching, or implementing CI/CD with affected commands. Keywords — nx, monorepo, workspace, projects, targets, affected. Do NOT use for running tasks (use nx-run-tasks) or code generation with generators (use nx-generate) and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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Aws Skills workflow skill. Use this skill when the user needs AWS development with infrastructure automation and cloud architecture patterns and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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Daily Gift workflow skill. Use this skill when the user needs Relationship-aware daily gift engine with five-stage creative pipeline — editorial judgment, synthesis, concept generation, visual strategy, and rendering in H5, image, or video and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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data-engineer workflow skill. Use this skill when the user needs Build scalable data pipelines, modern data warehouses, and real-time streaming architectures. Implements Apache Spark, dbt, Airflow, and cloud-native data platforms and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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DEVOPS-DEPLOY — Da Ideia para Producao workflow skill. Use this skill when the user needs DevOps e deploy de aplicacoes — Docker, CI/CD com GitHub Actions, AWS Lambda, SAM, Terraform, infraestrutura como codigo e monitoramento and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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CI Monitor Command workflow skill. Use this skill when the user needs Monitor Nx Cloud CI pipeline status and handle self-healing fixes automatically. Use when user says "watch CI", "monitor pipeline", "check CI status", "fix CI failures", or "self-heal CI". Requires Nx Cloud connection. Do NOT use for local task execution (use nx-run-tasks) or general CI debugging outside Nx Cloud and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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Game Art Principles workflow skill. Use this skill when the user needs Game art principles. Visual style selection, asset pipeline, animation workflow and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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Squirrel — Full-Cycle Software Development Skill workflow skill. Use this skill when the user needs Full-cycle AI coding skill: plans, builds, tests, lints, fixes bugs, and writes production-grade docs. Auto-detects project state and adapts its 8-phase pipeline and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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AgentFlow workflow skill. Use this skill when the user needs Orchestrate autonomous AI development pipelines through your Kanban board (Asana, GitHub Projects, Linear). Manages multi-worker Claude Code dispatch, deterministic quality gates, adversarial review, per-task cost tracking, and crash-proof pipeline execution and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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Aws Skills workflow skill. Use this skill when the user needs AWS development with infrastructure automation and cloud architecture patterns and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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Daily Gift workflow skill. Use this skill when the user needs Relationship-aware daily gift engine with five-stage creative pipeline — editorial judgment, synthesis, concept generation, visual strategy, and rendering in H5, image, or video and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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Inngest Integration workflow skill. Use this skill when the user needs Inngest expert for serverless-first background jobs, event-driven and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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sql-pro workflow skill. Use this skill when the user needs Master modern SQL with cloud-native databases, OLTP/OLAP optimization, and advanced query techniques. Expert in performance tuning, data modeling, and hybrid analytical systems and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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sql-pro workflow skill. Use this skill when the user needs Master modern SQL with cloud-native databases, OLTP/OLAP optimization, and advanced query techniques. Expert in performance tuning, data modeling, and hybrid analytical systems and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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AWS Advisor workflow skill. Use this skill when the user needs Expert AWS Cloud Advisor for architecture design, security review, and implementation guidance. Leverages AWS MCP tools for accurate, documentation-backed answers. Use when user asks about AWS architecture, security, service selection, migrations, troubleshooting, or learning AWS. Triggers on AWS, Lambda, S3, EC2, ECS, EKS, DynamoDB, RDS, CloudFormation, CDK, Terraform, Serverless, SAM, IAM, VPC, API Gateway, or any AWS service. Do NOT use for non-AWS cloud providers or general infrastructure without AWS context and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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Game Art Principles workflow skill. Use this skill when the user needs Game art principles. Visual style selection, asset pipeline, animation workflow and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

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java-pro workflow skill. Use this skill when the user needs Master Java 21+ with modern features like virtual threads, pattern matching, and Spring Boot 3.x. Expert in the latest Java ecosystem including GraalVM, Project Loom, and cloud-native patterns and the operator should preserve the upstream workflow, copied support files, and provenance before merging or handing off.

holobiomicslab Skill

Use when when you have access to a peer-reviewed manuscript with an accompanying interactive notebook and public data repository, and you need to verify that the published figures can be regenerated from the original data through the documented processing pipeline, or when you want to reuse the.

holobiomicslab Skill

Use when when a multi-language analysis pipeline (R + Python) has been validated and you need to document the exact dependency tree so that other researchers or systems can recreate the same computational environment.

holobiomicslab Skill

Use when when preparing to process raw LC-HRMS metabolomics data (.mzML or .abf files) with MS-DIAL within a Nextflow pipeline, before executing peak detection and chromatogram alignment.

holobiomicslab Skill

Use when you need to assess whether a newly developed FT-ICR MS pipeline (e.

holobiomicslab Skill

Use when you have raw mass spectrometry spectra (in MGF, mzML, or similar formats) that must undergo standardized preprocessing before library matching, similarity searching, or performance benchmarking.

holobiomicslab Skill

Use when you have raw spectroscopic datasets from heterogeneous sources (multiple Zenodo repositories with different file formats and scales) that must be jointly normalized, deduplicated, and aligned by molecular identifier to feed a multimodal deep learning architecture.

holobiomicslab Skill

Use when before running HiC-Pro's normalization stage on aligned Hi-C BAM files. Specifically, when you have SAM/BAM-formatted aligned Hi-C reads that need bias correction and matrix balancing to produce normalized contact maps suitable for downstream chromatin structure analysis.

holobiomicslab Skill

Use when when preparing to apply LDA to a new MS/MS spectral dataset in bag-of-fragments format, before running the full modeling pipeline.

holobiomicslab Skill

Use when you have executed a complex multi-step processing pipeline (e.g., ENCODE Hi-C uniform processing pipeline) and need to confirm that the generated output files match a known reference baseline.