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

Unsupported: Use of this version of CNVkit is not supported. More information on our Applications Support and Retention Policy.

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, BEARCloud VMs, and CaStLeS VMs):

module load bear-apps-unsupported/handbuilt/2019
module load CNVkit/0.9.8-foss-2020a-Python-3.8.2-R-4.0.0

BEAR Apps Version

2019h

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