LongRanger 2.2.2

Deprecated: Use of this version of LongRanger is deprecated. More information on our Applications Support and Retention Policy.

Long Ranger is a set of analysis pipelines that processes Chromium sequencing output to align reads and call and phase SNPs, indels, and structural variants. There are five main pipelines, each triggered by a longranger command

Accessing LongRanger 2.2.2

To load the module for LongRanger 2.2.2 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load LongRanger/2.2.2

BEAR Apps Version

2018b

Architectures

EL8-cascadelake — EL8-haswell — Ubuntu20.04-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 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 LongRanger website.

Dependencies

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

Required By

This version of LongRanger is a direct dependent of: HAPDeNovo/fe8bcc2-foss-2018b-Python-3.6.6

Last modified on 26th July 2019