One search for your own team's files and the public ecosystem. See how real projects write their agent instructions, and bring the good ideas home.
OpenAISkillopenai/plugins/plugins/ngs-analysis/skills/ngs-dna-variant-calling/SKILL.md
Dispatch WGS, WES, or targeted DNA variant requests to germline, somatic, or UMI-panel skills, then plan public nf-core/sarek, GATK4, DeepVariant, samtools, or bcftools workflows.
OpenAISkillopenai/plugins/plugins/ngs-analysis/skills/ngs-epigenomics-peaks/SKILL.md
Dispatch ATAC-seq, ChIP-seq, CUT&RUN, or CUT&Tag requests to assay-specific QC, alignment, signal-track, peak-calling, consensus, and differential peak workflows.
OpenAISkillopenai/plugins/plugins/ngs-analysis/skills/ngs-fastq-qc/SKILL.md
Validate FASTQ inputs, run local FastQC/MultiQC QC, interpret QC signals, and optionally execute fastp or Cutadapt trimming branches without overwriting raw reads.
OpenAISkillopenai/plugins/plugins/ngs-analysis/skills/ngs-runtime-env/SKILL.md
Check whether public NGS tools and packages already exist before downloading, installing, or running a sequencing pipeline.
OpenAISkillopenai/plugins/plugins/ngs-analysis/skills/ngs-scrna-seq/SKILL.md
Route single-cell or single-nucleus RNA-seq FASTQs to public count-generation workflows and defer post-count matrix QC, annotation, clustering, and UMAP analysis to the embedded scrna-seq-qc skill.
OpenAISkillopenai/plugins/plugins/ngs-analysis/skills/ngs-shotgun-metagenomics/SKILL.md
Kick off public shotgun metagenomics QC, host-depletion, taxonomic profiling, and functional profiling workflows using nf-core/taxprofiler, Kraken2, Bracken, MetaPhlAn, and HUMAnN.
OpenAISkillopenai/plugins/plugins/ngs-analysis/skills/scrna-seq-qc/SKILL.md
Process, quality-control, annotate, and visualize single-cell or single-nucleus RNA-seq datasets across tissues and species. Use when Codex needs to build, adapt, or review a general scRNA-seq QC pipeline; choose dataset-appropriate cell-level filters from QC distributions; run required scDblFinder-based doublet and ambient-RNA filtering; annotate cells with matched references or marker-based fallbacks; or generate global and per-group UMAP visualizations for large scRNA-seq datasets.
OpenAISkillopenai/plugins/plugins/notion/skills/notion-knowledge-capture/SKILL.md
Capture conversations and decisions into structured Notion pages; use when turning chats/notes into wiki entries, how-tos, decisions, or FAQs with proper linking.
OpenAISkillopenai/plugins/plugins/notion/skills/notion-meeting-intelligence/SKILL.md
Prepare meeting materials with Notion context and supplemental research; use when gathering context, drafting agendas/pre-reads, and tailoring materials to attendees.
OpenAISkillopenai/plugins/plugins/notion/skills/notion-research-documentation/SKILL.md
Research across Notion and synthesize into structured documentation; use when gathering info from multiple Notion sources to produce briefs, comparisons, or reports with citations.
OpenAISkillopenai/plugins/plugins/notion/skills/notion-spec-to-implementation/SKILL.md
Turn Notion specs into implementation plans, tasks, and progress tracking; use when implementing PRDs/feature specs and creating Notion plans + tasks from them.
OpenAISkillopenai/plugins/plugins/nvidia/skills/aiq-deploy/SKILL.md
Use when asked to install, deploy, run, validate, troubleshoot, or stop NVIDIA AI-Q Blueprint infrastructure.
OpenAISkillopenai/plugins/plugins/nvidia/skills/aiq-research/SKILL.md
Use when asked to run deep research or AI-Q research through a reachable NVIDIA AI-Q Blueprint backend.
OpenAISkillopenai/plugins/plugins/nvidia/skills/cuopt-user-rules/SKILL.md
Base rules for end users calling NVIDIA cuOpt (routing/LP/MILP/QP/install/server). Not for cuOpt internals — use cuopt-developer for those.
OpenAISkillopenai/plugins/plugins/nvidia/skills/dynamo-interconnect-check/SKILL.md
Validate that a Dynamo deployment's NIXL/UCX/NCCL interconnect is ready for disaggregated serving over RDMA/NVLink. Use after recipe-runner brings a deployment up (especially disagg/multi-node) to confirm the KV transport is correct; use troubleshoot for diagnosing already-failed pods.
OpenAISkillopenai/plugins/plugins/nvidia/skills/dynamo-router-starter/SKILL.md
Start or patch Dynamo router modes and run router endpoint smoke checks. Use for round-robin, KV-aware, least-loaded, or device-aware routing setup; use recipe-runner for recipe deployment and troubleshoot for failure diagnosis.
OpenAISkillopenai/plugins/plugins/nvidia/skills/nemoclaw-user-get-started/SKILL.md
Installs NemoClaw, launches a sandbox, and runs the first agent prompt. Use when onboarding, installing, or launching a NemoClaw sandbox for the first time. Trigger keywords - nemoclaw quickstart, install nemoclaw openclaw sandbox, nemohermes quickstart, hermes agent nemoclaw, run hermes openshell sandbox, nemoclaw prerequisites, nemoclaw supported platforms, nemoclaw hardware software, nemoclaw windows wsl2 setup, nemoclaw install windows docker desktop.
OpenAISkillopenai/plugins/plugins/nvidia/skills/nvidia-skill-finder/SKILL.md
Use for NVIDIA-related requests where an NVIDIA skill might help, even if the user did not ask for a skill. Trigger on NVIDIA products, hardware, software, SDKs, GPUs, Jetson/JetPack/L4T/BSP/SDK Manager/driver/flashing/setup, CUDA, NIM, NeMo, Omniverse/OpenUSD/SimReady, RAPIDS/cuDF, cuPyNumeric, cuOpt, Dynamo, Holoscan, TensorRT, DeepStream, VSS, TAO, NGC/NVCF. Do not use for generic non-NVIDIA route, optimize, deploy, AI, video, data, or infrastructure tasks.
OpenAISkillopenai/plugins/plugins/nvidia/skills/omniverse-cad-to-simready/SKILL.md
Coordinate the end-to-end CAD/source-asset to SimReady workflow. Use for broad requests such as CAD to SimReady, source asset to simulation-ready USD, or prop packaging that require conversion, material/physics assignment, SimReady conformance, validation, and optional package creation; deploy or verify Content Agents services first when property assignment is enabled; route single-stage work through nested references.
OpenAISkillopenai/plugins/plugins/nvidia/skills/omniverse-realtime-viewer/SKILL.md
Use as the top-level router for Omniverse Realtime Viewer USD app requests and focused viewer reference documents.
Plain text files in a repository that tell a coding agent how the project works: commands to run, conventions to follow and things to avoid. CLAUDE.md, AGENTS.md, cursor rules and skills are the common kinds.
CLAUDE.md is read by Claude Code. AGENTS.md is an open format that Codex, Cursor and other agents read. Many projects keep one and point the other at it.
A folder with a SKILL.md that describes one capability, such as filling PDFs or reviewing code. The agent loads it only when the task calls for it.
Your agents already can, over MCP, limited to the files you're allowed to read. Searching them from this page is coming.
