Picard 2016

Introduction

picard is a set of Java command-line tools for manipulating high-throughput sequencing (HTS) data and formats. it is implemented using the HTSJDK Java library HTSJDK to support accessing file formats that are commonly used for high-throughput sequencing data such as SAM and VCF. ¹

It was programmed by Phoenix HPC Service of The University of Adelaide, Australia.

Installed version(s)

This version is installed and currently available...

... on environment hpc-env/8.3:

• picard/2.22.3-Java-11
• picard/2.6.0-Java-11

... on environment hpc-uniol-env:

• picard/2.9.0

Using picard

To execute picard, you must run: java -jar $EBROOTPICARD/picard.jar

If you want to find out more about picard on the HPC cluster, you can use the command

module spider picard

This will show you basic information e.g. a short description and the currently installed version.

To load the desired version of the module, use the command, e.g.

module load hpc-env 6.4
module load picard

Always remember: this command is case sensitive!

Documentation

The full documentation can be found here.