shovill 1.1.0-foss-2019b-Python-3.7.4

Faster SPAdes assembly of Illumina reads

Accessing shovill 1.1.0-foss-2019b-Python-3.7.4

To load the module for shovill 1.1.0-foss-2019b-Python-3.7.4 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load shovill/1.1.0-foss-2019b-Python-3.7.4

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 shovill website.

Dependencies

This version of shovill has a direct dependency on: BWA/0.7.17-GCC-8.3.0 FLASH/1.2.11-GCC-8.3.0 foss/2019b KMC/3.1.2rc1-GCC-8.3.0-Python-3.7.4 Lighter/1.1.2-foss-2019b Mash/2.2-foss-2019b MEGAHIT/1.2.8-GCCcore-8.3.0 pigz/2.4-GCCcore-8.3.0 Pilon/1.23-Java-11 Python/3.7.4-GCCcore-8.3.0 samclip/0.4.0-GCCcore-8.3.0-Perl-5.30.0 SAMtools/1.10-GCC-8.3.0 seqtk/1.3-GCC-8.3.0 SKESA/2.4.0-foss-2019b SPAdes/3.14.1-GCC-8.3.0-Python-3.7.4 Trimmomatic/0.39-Java-11 Velvet/1.2.10-foss-2019b-mt-kmer_191

Last modified on 11th November 2020