Run the pinned nf-core marsseq preprocessing pipeline from a validated samplesheet.
npx skills add https://github.com/danilomonge/nf-claw --skill marsseq
Please help me install this Agent Skill. Skill: marsseq Source: https://github.com/danilomonge/nf-claw/tree/main/pipelines/marsseq Command: npx skills add https://github.com/danilomonge/nf-claw --skill marsseq
This Skill removes the guesswork from running the nf-core marsseq pipeline by turning a samplesheet and a chosen output directory into a validated, reproducible single-cell preprocessing run.
Ask the Skill to run the marsseq pipeline for your samplesheet with a chosen output directory and profile.
High-intent search queries and answers about installing and using this skill.
MARS-seq v2 preprocessing requires a validated samplesheet and chosen output directory to execute the pinned nf-core pipeline through Nextflow, producing reproducible single-cell FASTQ processing results.
The samplesheet requires exact validated columns and schema-validated parameters to successfully execute the nf-core marsseq pipeline, ensuring provenance-preserving Nextflow runs for your single-cell data.
Yes, MARS-seq preprocessing supports RNA velocity-enabled analyses by running the pinned nf-core pipeline with validated parameters, allowing you to process single-cell FASTQ data for velocity calculations.
Release-specific reruns are supported by running the release-pinned nf-core marsseq pipeline with validated parameters and your output directory, ensuring repeatable provenance-preserving Nextflow execution.
Yes, Nextflow is required for MARS-seq preprocessing because the workflow executes the pinned nf-core marsseq pipeline through Nextflow, ensuring runtime provenance and reproducible single-cell FASTQ processing.
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