STAR

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Category

Bioinformatics, Aligner

Description

STAR is an alignment tool for RNA-seq, developed by Alexander Dobin et al. STAR is implemented as a standalone C++ code.

Available versions (Euler, old software stack)

Legacy versions Supported versions New versions
2.4.2a, 2.5.3a

Please note that this page refers to installations from the old software stack. There are two software stacks on Euler. Newer versions of software are found in the new software stack.

Environment modules (Euler, old software stack)

Version Module load command Additional modules loaded automatically
2.4.2a module load gcc/4.8.2 star/2.4.2a
2.5.3a module load gcc/4.8.2 star/2.5.3a

Please note that this page refers to installations from the old software stack. There are two software stacks on Euler. Newer versions of software are found in the new software stack.

How to submit a job

You can submit a STAR job in batch mode with the following command:
sbatch [Slurm options] --wrap="STAR [STAR options]"
Here you need to replace [STAR options] with STAR command line options (please have a look at the STAR manual for getting a list of all command line options) and [Slurm options] with Slurm parameters for the resource requirements of the job. Please find a documentation about the parameters of sbatch on the wiki page about the batch system.

License information

GPLv3

Links

https://github.com/alexdobin/STAR

https://www.ncbi.nlm.nih.gov/pubmed/23104886