Subread
From ScientificComputing
Contents
Category
Bioinformatics, AlignerDescription
Subread is a general-purpose read aligner which can align both genomic DNA-seq and RNA-seq reads. It can also be used to discover genomic mutations including short indels and structural variants.Available versions (Euler, old software stack)
Legacy versions | Supported versions | New versions |
---|---|---|
1.5.0 |
Environment modules (Euler, old software stack)
Version | Module load command | Additional modules loaded automatically |
---|---|---|
1.5.0 | module load gcc/4.8.2 subread/1.5.0 |
How to submit a job
You can submit a subread job in batch mode with the following command:bsub [LSF options] "[executable] [options]"
where you need to replace [LSF options] with LSF parameters for the resource requirements of the job. Please find a documentation about the parameters of bsub on the wiki page about the batch system.
Here [executable] is one of the following executables:
exactSNP, featureCounts, subindel, subjunc, subread-align, subread-buildindexand [options] needs to be replaced by subread command line options.