Skills for building and running Nextflow pipelines with modules from the Nextflow Registry (nf-core and more)
Plugin nextflow from marketplace nextflow-io-agent-skills in nextflow-io/agent-skills. Commands read from the repo's manifest — 13 days ago.
create-workflowINVOKE 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 the Nextflow Registry. This skill handles
install-nextflowInstall 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.
launch-workflowLaunch 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 launching, or sign in to Seqera Platform.
migrate-nextflow-codeMigrate a Nextflow pipeline to new language patterns.
run-moduleRun 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).
seqeraconnects to: https://mcp.seqera.io/mcp
General life-sciences research workflows with query routing, evidence synthesis, and optional parallel subagent analysis across genetics, omics, biology, chemistry, structure, clinical evidence, and public dataset discovery.
50 skills
Query the KEGG bioinformatics database — pathways, genes, compounds, drugs, enzymes, diseases, reactions, and more via 34 read-only MCP tools. No API key required.
1 skill · 3 commands · 1 agent · 1 MCP server
2,700+ scientific tools (PubMed, UniProt, PubChem, TCGA, FAERS, ClinicalTrials.gov, etc.) + 160+ research skills + MCP server + research slash commands.
163 skills · 8 commands · 1 agent · 1 MCP server · hooks
SimBiology and Statistics and Machine Learning Toolbox.
3 skills
100+ bioinformatics Agent Skills: pharmacogenomics, clinical variant interpretation, GWAS and PRS, ancestry, RNA-seq and single-cell, metagenomics, proteomics, methylation clocks, nf-core pipeline wrappers. Many run deterministically from the CLI with demo data and write a reproducibility bundle. Local-first, privacy-focused.
111 skills · 4 commands
Read-only biomedical search and evidence retrieval across BioMCP's CLI command grammar (genes, variants, trials, articles, drugs, diseases, pathways, proteins, and more). Wires the local BioMCP MCP server.
2 skills
This page updates itself from your repo. Add the badge to your README, or get it Featured to pin it above the organic results with a followed link to your site.