Bismark 0.22.3-foss-2019b

A tool to map bisulfite converted sequence reads and determine cytosine methylation states

Accessing Bismark 0.22.3-foss-2019b

To load the module for Bismark 0.22.3-foss-2019b please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load Bismark/0.22.3-foss-2019b

BEAR Apps Version

2019b

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 Bismark website.

Dependencies

This version of Bismark has a direct dependency on: Bowtie2/2.3.5.1-GCC-8.3.0 foss/2019b Perl/5.30.0-GCCcore-8.3.0 SAMtools/1.10-GCC-8.3.0

Required By

This version of Bismark is a direct dependent of: FastQ_Screen/0.14.1-foss-2019b-Perl-5.30.0

Last modified on 17th June 2020