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Software

 

RNA-Seq Unified Mapper (RUM)

RUM is an alignment and junction calling pipeline specifically designed for Illumina RNA-Seq data.

 

LSF - Freiendly version of RNA-Seq Unified Mapper  (RUM)

The software found by clicking this link is a derivative of RUM that can utilize the LSF batch queue system on our Dell cluster.  The original RUM software was developed on a Sun Grid System that used the Torque batch queue system.  Since other researchers may use similar computing hardware, we would like to make the modified software available to them.  
 

More information:

Grant GR, Farkas MH, Pizzaro A, Lahens N, Schug J, Brunk B, Stoeckert CJ, Hogenesch JB and EA Pierce. Comparative Analysis of RNA-Seq Alignment Algorithms and the RNA-Seq Unified Mapper (RUM). Bioinformatics  doi: 10.1093/bioinformatics/btr427, 2011.