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Last Updated On: 

Tuesday, August 13, 2024

Support Level: 
Primary Support
Software Access Level: 
Open Access
Home Page: 
Link
Software Categories: 
Biostatistics
Genetics
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Spliced Transcripts Alignment to a Reference (STAR) is a software package developed for aligning large RNA-seq datasets.

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General Linux

You can load this software for use in an interactive Linux environment via the command:

module load star
Slurm Example

#!/bin/bash
#SBATCH --job-name="rfm_RunSTARTest_job"
#SBATCH --ntasks=24
#SBATCH --ntasks-per-node=24
#SBATCH --output=rfm_RunSTARTest_job.out
#SBATCH --error=rfm_RunSTARTest_job.err
#SBATCH --time=0:10:0
#SBATCH -p small,large,ram256g,ram1t
module load star/2.5.3a
wget https://public.s3.msi.umn.edu/reframe/sw/star/Melampsora_laricipopulina....
wget https://public.s3.msi.umn.edu/reframe/sw/trimmomatic/seq.fq
STAR --runMode genomeGenerate --runThreadN 24 --genomeDir ./ --genomeFastaFiles Melampsora_laricipopulina.GCA_000204055.1.dna.toplevel.fa
STAR --genomeDir ./ --runThreadN 24 --readFilesIn seq.fq --outFileNamePrefix output