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A flexible read trimming tool for Illumina NGS data

Trimmomatic requires an environment module

In order to use Trimmomatic, you must first load the appropriate environment module:

module load trimmomatic

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.

Using Trimmomatic on RCC Resources#

Once you load the environment module, 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.