ShortStack 4.0.2-foss-2022b

Alignment of small RNA-seq data and annotation of small RNA-producing genes.

Accessing ShortStack 4.0.2-foss-2022b

To load the module for ShortStack 4.0.2-foss-2022b please use this command on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs):

module load bear-apps/2022b
module load ShortStack/4.0.2-foss-2022b

BEAR Apps Version

2022b

Architectures

EL8-cascadelakeEL8-icelake

The listed architectures consist of two part: OS-CPU. The OS used is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.

More Information

For more information visit the ShortStack website.

Dependencies

This version of ShortStack has a direct dependency on: BEDTools/2.30.0-GCC-12.2.0 Biopython/1.81-foss-2022b Bowtie/1.3.1-GCC-12.2.0 cutadapt/4.4-GCCcore-12.2.0 foss/2022b Python/3.10.8-GCCcore-12.2.0 SAMtools/1.17-GCC-12.2.0 SciPy-bundle/2023.02-gfbf-2022b ShortTracks/1.1-foss-2022b strucVis/0.7-foss-2022b tqdm/4.64.1-GCCcore-12.2.0 ViennaRNA/2.6.4-foss-2022b

Last modified on 25th October 2023