ChAMP 2.18.3-foss-2020a-R-4.0.0

The package includes quality control metrics, a selection of normalization methods and novel methods to identify differentially methylated regions and to highlight copy number alterations.

Accessing ChAMP 2.18.3-foss-2020a-R-4.0.0

To load the module for ChAMP 2.18.3-foss-2020a-R-4.0.0 please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load ChAMP/2.18.3-foss-2020a-R-4.0.0

BEAR Apps Version

2020a

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

• bsseq 1.24.4
• ChAMP 2.18.3
• ChAMPdata 2.20.0
• DMRcate 2.2.3
• DSS 2.36.0
• Illumina450ProbeVariants.db 1.24.0
• IRanges 2.22.2
• isva 1.9
• JADE-2.0-3
• kpmt 0.1.0
• missMethyl 1.22.0
• prettydoc 0.4.1
• ROC 1.64.0
• RPMM 1.25
• ruv 0.9.7.1
• wateRmelon 1.32.0

More Information

For more information visit the ChAMP website.

Dependencies

This version of ChAMP has a direct dependency on: foss/2020a R/4.0.0-foss-2020a R-bundle-Bioconductor/3.11-foss-2020a-R-4.0.0

Required By

This version of ChAMP is a direct dependent of: BEAR-R-bio/2020a-foss-2020a-R-4.0.0

Last modified on 28th October 2022