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ampliseq

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Run amplicon sequencing analysis confidently

Data & Analytics#nf-core#nextflow#microbiome#dada2#qiime2#amplicon sequencing
Authordanilomonge
Version1.0.0
Installs0

System Documentation

What problem does it solve?

It turns a complex amplicon sequencing pipeline into a validated, reproducible run plan so you can process marker-gene data without guessing flags or looking up release-specific options.

Core Features & Use Cases

  • Run the nf-core/ampliseq workflow for 16S, ITS, CO1, 18S, and other amplicon studies.
  • Support paired-end Illumina, single-end Illumina, PacBio, and IonTorrent inputs, with optional primer trimming, quality filtering, taxonomic assignment, phylogenetic placement, and downstream diversity analysis.
  • Use it to process a microbiome samplesheet, generate abundance tables and reports, or rerun a pinned release with the exact parameter set required by that version.

Quick Start

Ask the ampliseq skill to analyze your samplesheet, choose the desired pipeline version and profile, and produce a validated command for the output directory you want.

Dependency Matrix

Required Modules

None required

Components

Standard package

💻 Claude Code Installation

Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.

Please help me install this Skill:
Name: ampliseq
Download link: https://github.com/danilomonge/nf-claw/archive/main.zip#ampliseq

Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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