Megalodon 2.4.2-foss-2021a

Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by anchoring the information rich basecalling neural network output to a reference genome/transriptome.

Accessing Megalodon 2.4.2-foss-2021a

To load the module for Megalodon 2.4.2-foss-2021a please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load Megalodon/2.4.2-foss-2021a

BEAR Apps Version

2021a

Architectures

EL8-cascadelake — EL8-haswell — EL8-icelake

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.

Extensions

  • mappy 2.24
  • megalodon 2.4.2
  • ont-fast5-api-4.0.0
  • ont_pyguppy_client_lib 6.0.1
  • progressbar33 2.4

More Information

For more information visit the Megalodon website.

Dependencies

This version of Megalodon has a direct dependency on: foss/2021a h5py/3.2.1-foss-2021a Pysam/0.16.0.1-GCC-10.3.0 Python/3.9.5-GCCcore-10.3.0 Remora/0.1.2-foss-2021a scikit-learn/0.24.2-foss-2021a SciPy-bundle/2021.05-foss-2021a Seaborn/0.11.2-foss-2021a tqdm/4.61.2-GCCcore-10.3.0

Last modified on 10th February 2022