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lsmquant

Community

Run light-sheet microscopy pipelines fast

Education & Research#bioinformatics#microscopy#nf-core#nextflow#quantification#samplesheet
Authordanilomonge
Version1.0.0
Installs0

System Documentation

What problem does it solve?

It helps researchers run the nf-core/lsmquant workflow without guessing flags, manually checking schema files, or drifting from the pinned release.

Core Features & Use Cases

  • Pinned pipeline execution: Run the exact lsmquant release bundled in the repository for reproducible results.
  • Validated inputs and parameters: Work from a samplesheet and schema-backed options so invalid values fail fast.
  • Clear outputs and provenance: Produce module results, pipeline info, and run logs suitable for repeatable bioinformatics analysis.
  • Use Case: A microscopy lab needs to preprocess tissue-clearing images, perform stitching or alignment, and generate quantification outputs from one standardized command.

Quick Start

Use the lsmquant skill to run the pinned pipeline on your samplesheet and save the results to your chosen output directory.

Dependency Matrix

Required Modules

None required

Components

references

💻 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: lsmquant
Download link: https://github.com/danilomonge/nf-claw/archive/main.zip#lsmquant

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