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nextflow

Open source alternatives to nextflow

24 open source AI Skills apps to use instead, best rated first.

Top picks

  1. G

    github-ops

    Launch

    github-ops is an agent skill from the ECC collection by affaan-m, listed on skills.sh. It manages a GitHub repository with a focus on community health, CI reliability and the experience of contributors. It covers triaging issues by classify

    Open source

  2. O

    opensource-pipeline

    Launch

    opensource-pipeline is an agent skill from the ECC collection by affaan-m, listed on skills.sh. It prepares a private project for safe public release through a three-stage pipeline. The fork stage strips secrets from a copy. The sanitise st

    Open source

  3. A

    andrej-karpathy-skills

    Launch

    andrej-karpathy-skills is a single CLAUDE.md file from the multica-ai project that is meant to improve how Claude Code behaves on coding tasks. It is derived from Andrej Karpathy's public observations about LLM coding pitfalls. The file dis

    Open source

  4. M

    microsoft/markitdown

    Launch

    markitdown-mcp is the MCP server package for MarkItDown, Microsoft's tool for converting many file formats to Markdown for language models. It is a lightweight server that runs over stdio, Streamable HTTP or SSE, and exposes one tool, conve

    Open source

  5. O

    od-contribute

    Launch

    od-contribute is an agent skill in the OpenDesign project that provides a guided, one-click contribution flow to the OpenDesign repository, written so that people without a coding background can send a real pull request. It is locked to the

    Open source

  6. G

    github-deep-research

    Launch

    github-deep-research is an agent skill from the DeerFlow project that researches a single GitHub repository in several rounds and writes a report in Markdown. It is for requests that need more than a README summary, such as a comprehensive

    Open source

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About nextflow

N

nextflow

Builds, runs, and debugs Nextflow DSL2 pipelines and nf-core workflows

nextflow is an agent skill for building, running and debugging Nextflow DSL2 pipelines and nf-core workflows. Nextflow is a workflow language and runtime for reproducible, portable and scalable data pipelines, and it is widely used in bioinformatics, though it works for any data-heavy computation. nf-core is a community that curates production-grade Nextflow pipelines, reusable modules and tooling. The skill explains the key ideas. Pipelines are made of processes connected by channels, and Nextflow works out the execution order and parallelism from the data dependencies. The same pipeline can run on a laptop, on HPC schedulers such as SLURM, SGE, LSF and PBS, or on cloud batch services and Kubernetes, by changing configuration profiles rather than code. Reproducibility comes from pinned software environments, pinned pipeline revisions, and recorded parameters. The skill is clear that resuming a run is a computational cache rather than scientific validation, and that Conda is an environment manager while Wave builds images. DSL2 is the required syntax.

View nextflowAll AI Skills apps
Price
Free
Made by
k-dense-ai
Category
AI Skills
Website
github.com/k-dense-ai/scientific-agent-skills/nextflow