User Tools

Site Tools


Picard tools

A set of Java command line tools for manipulating high-throughput sequencing data (HTS) data and formats.



See versions which are available:

$ module avail picard

Run picard (not necessary to load the module file):

$ java -jar /export/apps/picard/2.27.5/picard.jar

Note: Picard tools are CPU hungry; please use a minimum of 6 CPUs in your batch job when running tools from this suite.

Note: Picard makes use of temporary storage in /tmp during analysis by default. You will probably run into "No space left on device" errors unless you specify a different temp directory, for example: TMP_DIR=/var/scratch.


Notes from the sysadmin during installation:

$ cd /tmp
$ wget
$ sudo mkdir -p /export/apps/picard/2.27.5
$ sudo cp picard.jar /export/apps/picard/2.27.5
picard-software.txt · Last modified: 2022/11/21 08:01 by aorth