nextflow-io/agent-skills

Letzte erfasste Quellaktivität: 13. Oktober 2026 um 11:55

SkillsMP-Katalog aktualisiert: 9. November 2026 um 14:22

gesammelte Skills: 5

GitHub-Stars: 25
GitHub-Forks: 1

Mit einem KI-Assistenten installieren

Diesen Prompt kopieren und in den verwendeten KI-Assistenten einfügen.

Follow https://skillsmp.com/skill-install/prompt.md to install Agent Skills from https://github.com/nextflow-io/agent-skills.

README des Repositorys

README-Quelldatei: README.md

README-Quelldatei lesen

Vollständige README anzeigen

# Nextflow Agent Skills > [!IMPORTANT] > This repository is archived. The skills have moved to [seqeralabs/nextflow-plugin](https://github.com/seqeralabs/nextflow-plugin). > > If you installed the plugin from this repository, uninstall it and install the new one: > > ``` > /plugin uninstall nextflow@nextflow-io-agent-skills > /plugin marketplace remove nextflow-io-agent-skills > /plugin marketplace add seqeralabs/nextflow-plugin > /plugin install nextflow@nextflow-plugin > ``` > > To install just the skills, use `npx skills add seqeralabs/nextflow-plugin` or `gh skill install seqeralabs/nextflow-plugin`. Agent skills for building and running Nextflow pipelines with modules from the [Nextflow Registry](https://registry.nextflow.io). The Nextflow Registry is the central place to discover and share Nextflow modules and plugins. Modules are published under namespaces — [nf-core](https://nf-co.re) is the most prominent — and these skills work with modules from any of them. These skills follow the [Agent Skills](https://agentskills.io/specification) specification, so they can be used by any skills-compatible agent, including Claude Code, Codex CLI, OpenCode, and Cursor. ## Skills - [`install-nextflow`](./skills/install-nextflow) — Install or upgrade Nextflow (and Java 17+ via SDKMAN if needed) - [`create-workflow`](./skills/create-workflow) — Create Nextflow pipelines by composing modules from the Nextflow Registry - [`run-module`](./skills/run-module) — Run Nextflow Registry modules (process and workflow modules) natively using the `nextflow module` command - [`launch-workflow`](./skills/launch-workflow) — Launch pipeline executions on Seqera Platform - [`migrate-nextflow-code`](./skills/migrate-nextflow-code) — Migrate pipeline code to new language features ## Installation ### Claude Code ``` /plugin marketplace add nextflow-io/agent-skills /plugin install nextflow@nextflow-io-agent-skills ``` When prompted, approve the Seqera MCP server connection to enable the skills. Claude Code automatically keeps your skills up to date. ### GitHub CLI If you use the [GitHub CLI](https://cli.github.com/) (v2.90.0+), you can install skills with [`gh skill`](https://github.blog/changelog/2026-04-16-manage-agent-skills-with-github-cli/): ```bash gh skill install nextflow-io/agent-skills ``` Pick the skills you want and the coding agents you want to install them on. The installer supports Claude Code, Codex, Cursor, and other agents that follow the skills convention. For skills that require the Seqera MCP (e.g. `launch-workflow`), make sure the [Seqera MCP server](https://mcp.seqera.io/mcp) is configured for your agent. You can update installed skills using `gh skill update`: ```bash # Check for updates interactively gh skill update # Update all installed skills gh skill update --all ``` ## Local Development To test the plugin locally without installing: ```bash claude --plugin-dir /path/to/agent-skills ``` ## Requirements - A coding agent that supports agent skills (e.g. Claude Code, Codex, Cursor) - [Nextflow](https://nextflow.io) **26.04 or later** (you can use the `install-nextflow` skill to install it); **26.10 or later** for workflow modules ## License Apache-2.0

README des Repositorys wird geladen…

Skills in diesem Repository

Netzwerk- und Computersystemadministratoren

1 Berufskategorien · 20% klassifiziert

Skill

Beruf

Beschreibung

Aktualisiert

migrate-nextflow-code

nicht klassifiziert

Migrate a Nextflow pipeline to new language patterns.

Quellsprache: Englisch

2026-10-13

create-workflow

nicht klassifiziert

INVOKE THIS SKILL IMMEDIATELY when user asks to: write/create/build a Nextflow pipeline or workflow, create any bioinformatics pipeline (RNA-seq, DNA-seq, variant calling, ChIP-seq, etc.), or compose/chain Nextflow modules (process or workflow modules) from…

Quellsprache: Englisch

2026-10-13

install-nextflow

nicht klassifiziert

Install or upgrade Nextflow on the user's machine. Use when the user wants to install Nextflow, check their current Nextflow version, upgrade Nextflow, or set up the prerequisites (Java 17+) needed to run Nextflow.

Quellsprache: Englisch

2026-10-13

run-module

nicht klassifiziert

Run Nextflow Registry modules natively using `nextflow module` commands. Use when running, listing, or getting info about Nextflow modules, including process modules (a single tool) and workflow modules (subworkflows that chain several modules).

Quellsprache: Englisch

2026-10-13

launch-workflow

Netzwerk- und Computersystemadministratoren

Launch Nextflow pipeline executions on cloud and HPC clusters via Seqera Platform. Use when the user wants to run/launch/submit a pipeline on a cloud or cluster compute environment, configure a compute environment, push pipeline changes to GitHub before…

Quellsprache: Englisch

2026-06-09

Es werden 5 von 5 gesammelten Skills angezeigt.