BEAR Applications

nanopolish 0.14.0-foss-2021b

Signal-level algorithms for MinION data

Accessing nanopolish 0.14.0-foss-2021b

To load the module for nanopolish 0.14.0-foss-2021b please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load bear-apps/2021b
module load nanopolish/0.14.0-foss-2021b

BEAR Apps Version

2021b

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.

More Information

For more information visit the nanopolish website.

Dependencies

This version of nanopolish has a direct dependency on: Biopython/1.79-foss-2021b foss/2021b HDF5/1.12.1-gompi-2021b HTSlib/1.14-GCC-11.2.0 minimap2/2.24-GCCcore-11.2.0 OrthoFinder/2.5.4-foss-2021b Pysam/0.18.0-GCC-11.2.0 Python/3.9.6-GCCcore-11.2.0 SciPy-bundle/2021.10-foss-2021b VBZ-Compression/1.0.2-gompi-2021b zlib/1.2.11-GCCcore-11.2.0

Other Versions

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

Last modified on 4th April 2023