Home

Eoulsan is a command line workflow engine for Next Generation Sequencing data analysis. Eoulsan is able to execute many high throughput sequencing workflows like RNA-Seq, ChIP-Seq or scRNASeq. It can be run either in standalone mode or in distributed mode using the Hadoop framework or a more standard job scheduler.

This wiki contains all the information needed to use Eoulsan and to develop plug-ins.

User documentation is available on Eoulsan website.

Basics to use Eoulsan

• Introduction to Eoulsan
• What is a design file?
• What is a workflow file?
• How to launch an analysis?
• A glossary on Eoulsan terms and concepts

Tutorials

• Analysis of bulk RNA-Seq data
• Analysis of bulk RNA-Seq long read data (Nanopore)
• Analysis of Single cell RNA-Seq data using a SmartSeq2 protocol
• Analysis of Single cell RNA-Seq data using a 10X Genomics Chromium protocol
• Analysis of ChIP-Seq data

Using Eoulsan on a computational cluster

• Using Eoulsan with Hadoop
• Using Eoulsan with a job scheduler

Frequently asked questions

See the FAQ page.

Basics to develop plug-ins for Eoulsan

See the Developer documentation.