nextflow-base
About
A basic boilerplate structure for Nextflow based pipelines with continues integration test case added. This is mostly inspired by nf-core code and structure style.
Currently on this pipeline three basic steps on any Sequence based analysis (starts from fastq files) present -
- Quality Check (using fastqc)
- Filtering (Using fastp)
- Sequence Read Quantification (Using kallisto)
This can be used as a base to add other process.
Clone and Modify
git clone https://github.com/codingene/nextflow-base.git
Test Run
Without cloning if just want to test run it.
nextflow run codingene/nextflow-base -profile test,docker
This will directly pull the repo from GitHub and execute.
Check the Documentation for more.