DevOps & Infra

ariffazil Skill

Invoke arifOS constitutional MCP tools (000-999 pipeline, F1-F13 enforced). Use to call arif_* tools on the arifos_remote MCP server.

gptomics Bundle

Calls germline SNPs and indels with Google DeepVariant, which reframes variant calling as CNN image classification over multi-channel pileup tensors. Covers platform-specific model selection (WGS, WES, PACBIO, ONT_R104, HYBRID_PACBIO_ILLUMINA), one-shot run_deepvariant vs the three-stage make_examples/call_variants/postprocess_variants pipeline, GPU acceleration of call_variants, DeepTrio for family/trio and de-novo calling, and joint genotyping of gVCFs with GLnexus (not GenotypeGVCFs). Use when deciding DeepVariant vs GATK vs DRAGEN, picking the right --model_type for a sequencing platform, avoiding post-hoc GATK hard filters or BQSR that degrade CNN calls, calling de-novo variants in a trio, merging a DeepVariant cohort, or weighing GIAB-trained benchmark accuracy before clinical deployment.

sboghossian-mini-claude-for-legal Skill

Use when an enterprise customer's IT administrator needs to configure Single Sign-On (SSO) for Louis using SAML 2.0 with their identity provider (Okta, Azure AD / Entra ID, Google Workspace, or Auth0). Covers the end-to-end setup flow, attribute mapping, tenant and group provisioning, testing, and rollout. Applicable across all jurisdictions for any Enterprise-tier deployment.

sboghossian-mini-claude-for-legal Skill

Use when an error occurs anywhere in the legal AI request pipeline and a structured response decision is needed. Classifies errors into six categories (transient, provider, client-input, auth/quota, backend-bug, schema/data-integrity) and outputs the correct action (retry, failover, user guidance, upgrade flow, ticket, escalation) along with a user-facing message and an optional internal ticket reference.

sboghossian-mini-claude-for-legal Skill

Use when a matter involves oil and gas contracts, energy sector licensing, upstream/downstream regulatory obligations, production sharing agreements, or energy-project law in MENA jurisdictions (Saudi Arabia, UAE, Kuwait, Qatar, Oman, Iraq, Egypt, Libya). Covers national oil company frameworks, concession and PSA structures, joint-venture arrangements, environmental and decommissioning obligations, LNG and pipeline regulation, and dispute-resolution in the energy sector. Triggers on oil and gas contracts MENA, PSA, energy licensing KSA/UAE, upstream/downstream regulation, Saudi Aramco, ADNOC, or energy project disputes.

oimiragieo Bundle

Check voice message pipeline config — verify Whisper, ElevenLabs/OpenAI TTS keys and dependencies.

sboghossian-mini-claude-for-legal Skill

Use when running the automated daily evaluation suite that measures the legal AI system's output quality across all benchmark datasets. Orchestrates the full eval pipeline — loading datasets, calling the production model, scoring with LLM-as-judge rubrics, detecting regressions, and publishing results to the leaderboard and observability dashboards.

gptomics Bundle

End-to-end 16S/ITS amplicon workflow from demultiplexed FASTQ to a consensus differential-abundance result, orchestrating cutadapt primer removal, per-run DADA2 ASV inference (learnErrors/mergeSequenceTables/removeBimeraDenovo), region-matched taxonomy assignment, a SEPP/Greengenes2 tree, alpha/beta diversity at a declared sampling depth (phyloseq/vegan, adonis2 paired with betadisper), compositional DA as a consensus of >=2 tools (ALDEx2/ANCOM-BC2) on unrarefied counts, and optional PICRUSt2 functional prediction gated on NSTI. Covers the stage-ordering decisions (primers before truncation, per-run error model, rarefy for diversity not DA, predicted potential not activity) and defers each per-step choice to the six microbiome skills. Use when staging an amplicon study end to end or chaining ASV inference, taxonomy, diversity, and differential abundance. For shotgun reads see workflows/metagenomics-pipeline.

sboghossian-mini-claude-for-legal Skill

Use to select the minimal toolset required to fulfill a request. Defaults to no tools and adds tools only when there is a clear, specific reason — preventing unnecessary RAG retrieval, web search, or paid API calls that add latency and cost without improving response quality. Consumes the output of the skip-RAG gate, tier-awareness gate, and complexity grader to produce a final tools array for the response pipeline.

oimiragieo Bundle

Implement Kubernetes security policies including NetworkPolicy, PodSecurityPolicy, and RBAC for production-grade security. Use when securing Kubernetes clusters, implementing network isolation, or enforcing pod security standards.

gptomics Bundle

Aggregates per-tool QC metrics (FastQC, fastp, alignment, quantification, variant calling, single-cell) into one interactive MultiQC report, and guides module scoping, sample-name resolution, large-cohort behavior, and turning the report into an actual QC gate. Use when summarizing QC across many samples, building a shareable quality report, or wiring automated QC into a pipeline.

oimiragieo Bundle

Design, organize, and manage Helm charts for templating and packaging Kubernetes applications with reusable configurations. Use when creating Helm charts, packaging Kubernetes applications, or implementing templated deployments.

oimiragieo Bundle

Create production-ready Kubernetes manifests for Deployments, Services, ConfigMaps, and Secrets following best practices and security standards. Use when generating Kubernetes YAML manifests, creating K8s resources, or implementing production-grade Kubernetes configurations.

oimiragieo Bundle

Improve router-facing pipeline and reflection narration to reduce noisy status churn and make Step 0/Reflection outcomes explicit. Use when updating Router output contract, reflection reminder wording, or post-pipeline notification batching.

sboghossian-mini-claude-for-legal Skill

Use to detect the deployment surface (web, mobile, voice, API, Word plugin, email) and apply appropriate output shaping rules — word limits, formatting style, citation placement, and structure depth. Runs in every response pipeline before the response is composed. Ensures that a mobile user does not receive a wall of markdown, a voice user does not receive bulleted lists, and an API caller does not receive narrative text when JSON was expected.

oimiragieo Bundle

Uses GitHub Actions or GitLab CI for CI/CD implementation.

intent-solutions-io Bundle

Generate production-ready forecasting experiments with StatsForecast and TimeGPT. Use when setting up model benchmarking or cross-validation. Trigger with 'scaffold experiment' or 'compare models'.

intent-solutions-io Bundle

Transform forecasting experiments into Airflow/Prefect pipelines with monitoring. Use when deploying forecasts to production. Trigger with 'generate pipeline' or 'create Airflow DAG'.

intent-solutions-io Bundle

Generate production-ready TimeGPT forecasting pipeline code from requirements. Use when scaffolding a pipeline with validation, logging, visualization, and repeatable runs. Trigger with "create TimeGPT pipeline", "build TimeGPT integration", or "generate forecast code".

gptomics Bundle

End-to-end shotgun metagenomics workflow from FASTQ to taxonomic and functional profiles, orchestrating controls/host depletion, Kraken2+Bracken classification, MetaPhlAn marker profiling, and HUMAnN functional profiling. Covers the controls-first ordering, why Kraken2 read counts are not abundances and MetaPhlAn cell fractions do not equal Bracken read fractions, and the consistent-pipeline framing. Use when profiling shotgun metagenomic samples end to end, or chaining classification, abundance, and function. For resistome see metagenomics/amr-detection; for strains see metagenomics/strain-tracking; for assembly see genome-assembly/metagenome-assembly.

intent-solutions-io Bundle

Produces verified datasets, verified evaluation results, and a deployable contract bundle for a workflow. Use when you need provable correctness at data and evaluation boundaries. Trigger with 'verify workflow', 'validate contract', or 'run verification pipeline'.

sboghossian-mini-claude-for-legal Skill

Use when a legal-AI platform engineer or operator needs to manage Cloudflare infrastructure — DNS records, Pages deployments, Workers scripts, R2 object storage, and KV namespaces — from within an AI-assisted workflow. Scoped to platform operations for legal-tech products; not a general Cloudflare tutorial. Triggers on requests to deploy, configure, or inspect Cloudflare resources for the legal-AI product stack.

intent-solutions-io Skill

This skill enables Claude to orchestrate complex test workflows using the test-orchestrator plugin. It allows Claude to define test execution graphs with dependencies, execute tests in parallel, and intelligently select tests to run based on code changes. Use this skill when a user requests test orchestration, dependency management for tests, parallel test execution, smart test selection, or CI/CD integration for testing. Trigger terms include "orchestrate tests", "test workflow", "parallel testing", "smart test selection", "test dependencies", and "/orchestrate".

gptomics Bundle

End-to-end pooled and single-cell CRISPR screen analysis from FASTQ to hit genes. Orchestrates library design QC, guide counting, six-stage screen QC (plasmid Gini, replicate Pearson, CEGv2 PR-AUC, copy-number artifact), method-appropriate hit calling across MAGeCK RRA/MLE, BAGEL2, drugZ, JACKS, and Chronos, cancer-cell-line copy-number correction (CRISPRcleanR / Chronos), batch correction for multi-batch screens, and the specialized branches for combinatorial paralog screens, single-cell Perturb-seq, base-editor variant-function screens, prime-editor screens, and in vivo bottleneck-aware screens. Use when analyzing any pooled CRISPR screen end-to-end, matching the hit-calling method to the experimental design, integrating copy-number correction into the pipeline, or branching the workflow for single-cell, combinatorial, base-editor, prime-editor, or in vivo variants.

intent-solutions-io Skill

This skill enables Claude to analyze and optimize cloud costs. It identifies areas for potential savings, generates cost reports, and suggests configuration changes to reduce expenses. Use this skill when the user asks to "optimize cloud costs", "reduce cloud spending", "generate a cost report", or similar requests related to cloud resource expenses. It is especially useful when the user provides details about their cloud environment (e.g., AWS, Azure, GCP). The skill leverages best practices for cost optimization and provides production-ready configurations.

gptomics Bundle

Download genome assemblies, gene records, and ortholog data from NCBI using the modern Datasets v2 CLI (replaces assembly_summary.txt scraping and many EFetch workflows). Use when bulk-pulling genome assemblies, gene metadata across species, ortholog sets, or BLAST databases; when E-utilities are too slow for genome-scale work; or when automatic checksum verification, parallel download, and clean accession-driven retrieval are required. Encodes the JSON-lines output format, dataformat conversion, --dehydrated for cloud workflows, and when Datasets is/isn't the right tool.

sboghossian-mini-claude-for-legal Skill

Use at the start of every request pipeline to grade the complexity of the incoming request and assign it to a complexity bucket. Buckets drive downstream model selection, token budget, tool activation, and latency targets. Five buckets ranging from short-answer (under 200 tokens) to agentic (multi-step with tool calls and gates). Outputs a JSON object consumed by the tool selector and model router.

intent-solutions-io Skill

This skill sets up log aggregation solutions using ELK (Elasticsearch, Logstash, Kibana), Loki, or Splunk. It generates production-ready configurations and setup code based on specific requirements and infrastructure. Use this skill when the user requests to set up logging infrastructure, configure log aggregation, deploy ELK stack, deploy Loki, deploy Splunk, or needs help with observability. It is triggered by terms like "log aggregation," "ELK setup," "Loki configuration," "Splunk deployment," or similar requests for centralized logging solutions.

gptomics Bundle

Stores and operates on sparse expression matrices for single-cell and large bulk RNA-seq, covering dgCMatrix/dgRMatrix/dgTMatrix when-each-is-fast, the dgCMatrix (CSC, R) <-> CSR (Python) implicit transpose, AnnData (cells-rows) <-> SingleCellExperiment (cells-cols) orientation flip, HDF5/h5ad vs Zarr cloud-native shift, HDF5SummarizedExperiment + DelayedArray for out-of-memory bulk, scanpy backed mode for large h5ad, the ~10-15% density crossover where dense beats sparse, 10X format proliferation (MTX vs CellRanger H5 vs h5ad), the dense-conversion memory blow-up, and Dask + Zarr for consortium-scale matrices. Use when choosing sparse format, working with single-cell-sized matrices, importing/exporting 10X, debugging R/Python interop transposes, processing matrices too large for RAM, or building cloud-native pipelines.

sboghossian-mini-claude-for-legal Skill

Use when a user uploads a scanned PDF (no text layer) and needs it processed through automatic OCR before any legal analysis, chat, or document workspace ingestion can proceed. This is the lightweight router-level entry point for scanned PDF handling; it detects the absence of a text layer and delegates to the full OCR pipeline, supporting Arabic, English, and French documents with a user-confirmation fallback when confidence is low.

intent-solutions-io Skill

This skill empowers Claude to build AutoML pipelines using the automl-pipeline-builder plugin. It is triggered when the user requests the creation of an automated machine learning pipeline, specifies the use of AutoML techniques, or asks for assistance in automating the machine learning model building process. The skill analyzes the context, generates code for the ML task, includes data validation and error handling, provides performance metrics, and saves artifacts with documentation. Use this skill when the user explicitly asks to "build automl pipeline", "create automated ml pipeline", or needs help with "automating machine learning workflows".

intent-solutions-io Skill

This skill enables Claude to construct GitOps workflows using ArgoCD and Flux. It is designed to generate production-ready configurations, implement best practices, and ensure a security-first approach for Kubernetes deployments. Use this skill when the user explicitly requests "GitOps workflow", "ArgoCD", "Flux", or asks for help with setting up a continuous delivery pipeline using GitOps principles. The skill will generate the necessary configuration files and setup code based on the user's specific requirements and infrastructure.

intent-solutions-io Skill

This skill enables Claude to deploy machine learning models to production environments. It automates the deployment workflow, implements best practices for serving models, optimizes performance, and handles potential errors. Use this skill when the user requests to deploy a model, serve a model via an API, or put a trained model into a production environment. The skill is triggered by requests containing terms like "deploy model," "productionize model," "serve model," or "model deployment."

intent-solutions-io Skill

This skill creates Ansible playbooks for automating configuration management tasks. It generates production-ready, multi-platform playbooks based on user-defined requirements, incorporating best practices and a security-first approach. Use this skill when you need to automate server configurations, software deployments, or infrastructure management using Ansible. Trigger this skill by requesting "Ansible playbook," specifying configuration details, or asking for automation of a particular setup.

intent-solutions-io Skill

This skill automates database archival processes. It helps reduce primary database size by moving historical records to archive tables or cold storage solutions like S3, Azure Blob, or GCS. The plugin supports PostgreSQL and MySQL, implementing automated retention policies, compression, compliance tracking, and zero-downtime migration. Use this when the user mentions "database archival", "archive old database records", "retention policies", "cold storage", or "reduce database size." It is particularly useful for handling requests related to data lifecycle management and compliance requirements in database systems.

gptomics Bundle

Authors bioinformatics pipelines in WDL (Workflow Description Language) run by Cromwell or miniwdl, targeting the GATK/Broad and Terra/AnVIL/BioData Catalyst cloud ecosystem, with tasks, workflows, scatter-gather parallelism, structs, and a runtime block that sizes the cloud VM. Use when deciding to target Terra/AnVIL/GATK/WARP (chosen for the ecosystem, not the language); sizing runtime disks dynamically for a fresh-per-task cloud VM (ceil(size(f)*factor)+buffer); choosing preemptible vs on-demand VMs by task length and idempotency; picking Cromwell (production, cloud, call-caching) vs miniwdl (local dev, miniwdl check linting, readable errors); enabling and debugging call-caching silent-miss modes; pinning Docker by digest for reproducibility and cache stability; or scattering an array for parallel fan-out.