medaka 1.11.1-foss-2022a

medaka is a tool to create a consensus sequence of nanopore sequencing data.

Accessing medaka 1.11.1-foss-2022a

To load the module for medaka 1.11.1-foss-2022a please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load bear-apps/2022a
module load medaka/1.11.1-foss-2022a

BEAR Apps Version

2022a

Architectures

EL8-cascadelake — EL8-icelake — EL8-sapphirerapids

The listed architectures consist of two part: OS-CPU. The OS used 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.

Extensions

• mappy 2.24
• medaka 1.11.1
• pyspoa 0.2.1
• wurlitzer 3.0.3

More Information

For more information visit the medaka website.

Dependencies

This version of medaka has a direct dependency on: BCFtools/1.15.1-GCC-11.3.0 edlib/1.3.9-GCC-11.3.0 foss/2022a HTSlib/1.15.1-GCC-11.3.0 intervaltree-python/3.1.0-GCCcore-11.3.0 minimap2/2.24-GCCcore-11.3.0 ont-fast5-api/4.1.1-foss-2022a Pysam/0.19.1-GCC-11.3.0 Python/3.10.4-GCCcore-11.3.0 python-parasail/1.3.3-foss-2022a Racon/1.5.0-GCCcore-11.3.0 SAMtools/1.16.1-GCC-11.3.0 TensorFlow/2.11.0-foss-2022a WhatsHap/1.7-foss-2022a

Last modified on 14th November 2023