snpEff 4.5covid19-Java-1.8

There is a newer version of snpEff

snpEff is a genetic variant annotation and effect prediction toolbox. It annotates and predicts the effects of variants on genes (such as amino acid changes).

Accessing snpEff 4.5covid19-Java-1.8

To load the module for snpEff 4.5covid19-Java-1.8 please use this command on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs):

module load snpEff/4.5covid19-Java-1.8

BEAR Apps Version

2019b

Architectures

EL8-cascadelakeEL8-haswellUbuntu20.04-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 Cloud and CaStLeS 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 snpEff website.

Dependencies

This version of snpEff has a direct dependency on: Java/1.8

Other Versions

These versions of snpEff are available on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Version BEAR Apps Version
5.0e-GCCcore-11.2.0-Java-11 2021b

Last modified on 17th June 2020