Introduction

Trimmomatic is a package written in JAVA which is designed to perform several important read trimming tasks on Illumina data. It can work with both Illumina paired-end data and single ended data.

Use of Trimmomatic on RCC Resources

To use Trimmomatic on Spear, first load the module:

module load trimmomatic

Then, you can run the package with the following syntax:

java -jar $trimmomatic [input/output parameters]

The available input/output parameters are discussed in the online documentation for Trimmomatic.