rMATS 4.0.2-foss-2019a-Python-2.7.15

MATS is a computational tool to detect differential alternative splicing events from RNA-Seq data. The statistical model of MATS calculates the P-value and false discovery rate that the difference in the isoform ratio of a gene between two conditions exceeds a given user-defined threshold. From the RNA-Seq data, MATS can automatically detect and analyze alternative splicing events corresponding to all major types of alternative splicing patterns. MATS handles replicate RNA-Seq data from both paired and unpaired study design.

Accessing rMATS 4.0.2-foss-2019a-Python-2.7.15

To load the module for rMATS 4.0.2-foss-2019a-Python-2.7.15 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load rMATS/4.0.2-foss-2019a-Python-2.7.15

BEAR Apps Version

2019a

Architectures

EL8-cascadelake — EL8-haswell

The listed architectures consist of two part: OS-CPU.

  • BlueBEAR: The OS used on BlueBEAR 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.
  • BEAR and CaStLeS Cloud VMs: These VMs can have one of two OSes. Those with access to a BEAR Cloud or CaStLeS VM should check that the listed architectures for an application include the OS of VM being used. The VMs, irrespective of OS, will use the haswell CPU type.

More Information

For more information visit the rMATS website.

Dependencies

This version of rMATS has a direct dependency on: foss/2019a GSL/2.5-GCC-8.2.0-2.31.1 Pysam/0.15.2-foss-2019a Python/2.7.15-GCCcore-8.2.0 SAMtools/1.9-GCC-8.2.0-2.31.1 SciPy-bundle/2019.03-foss-2019a STAR/2.7.1a-GCC-8.2.0-2.31.1

Last modified on 27th November 2019