CNVkit 0.9.8-foss-2020a-Python-3.8.2-R-4.0.0

Copy number variant detection from targeted DNA sequencing http://cnvkit.readthedocs.org

Accessing CNVkit 0.9.8-foss-2020a-Python-3.8.2-R-4.0.0

To load the module for CNVkit 0.9.8-foss-2020a-Python-3.8.2-R-4.0.0 please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load CNVkit/0.9.8-foss-2020a-Python-3.8.2-R-4.0.0

BEAR Apps Version

2020a

Architectures

EL8-cascadelakeEL8-icelakeEL8-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

  • CNVkit 0.9.8
  • pomegranate 0.13.5
  • pyfaidx 0.5.9.5
  • reportlab 3.5.65

More Information

For more information visit the CNVkit website.

Dependencies

This version of CNVkit has a direct dependency on: Biopython/1.78-foss-2020a-Python-3.8.2 foss/2020a matplotlib/3.2.1-foss-2020a-Python-3.8.2 networkx/2.4-foss-2020a-Python-3.8.2 Pillow/7.0.0-GCCcore-9.3.0-Python-3.8.2 Pysam/0.16.0.1-GCC-9.3.0 Python/3.8.2-GCCcore-9.3.0 PyYAML/5.3-GCCcore-9.3.0 R/4.0.0-foss-2020a R-bundle-Bioconductor/3.11-foss-2020a-R-4.0.0 scikit-learn/0.23.2-foss-2020a-Python-3.8.2

Last modified on 15th March 2021