Work in progress

microarray-qc-workflow

Takes .cel files and creates qc plots as well as normalising the data

Introduction

microarray-qc-workflow: Takes .cel files and creates qc plots as well as normalising the data

The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It comes with docker / singularity containers making installation trivial and results highly reproducible.

Documentation

The microarray-qc-workflow pipeline comes with documentation about the pipeline, found in the docs/ directory:

1. Installation
2. Pipeline configuration
   • Local installation
   • Adding your own system
3. Running the pipeline
4. Output and how to interpret the results
5. Troubleshooting

Credits

This pipeline was written by Timo Lucas (lucass122) at QBiC Tübingen. R script based on script by Stefan Czemmel [qbicStefanC]: https://github.com/qbicsoftware/qbic-wf-microarrayQC