differentialabundance

What problem does it solve?

nf-claw packages the nf-core differentialabundance pipeline so an AI agent can run differential abundance analyses without guessing flags, missing required inputs, or drifting from the pinned release.

Core Features & Use Cases

• Release-pinned execution: Run the exact upstream pipeline version captured in the skill, with reproducible provenance and consistent outputs.
• Broad omics coverage: Handle RNA-seq, Affymetrix array, MaxQuant proteomics, GEO SOFT, and generic matrix-based studies from a single entry point.
• Validated analysis setup: Provide the samplesheet, study type, and optional analysis choices, and the skill maps them to the correct required parameters and defaults.
• Typical use case: Compare sample groups in a matrix experiment, generate differential statistics, and produce downstream exploratory and functional analysis reports.

Quick Start

Tell the skill to run differentialabundance for your dataset with the correct samplesheet, study type, and output directory, and let it assemble the exact reproducible command for the pinned release.