ChAMP 2.18.3-foss-2020a-R-4.0.0The 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, BEARCloud VMs, and CaStLeS VMs):
module load ChAMP/2.18.3-foss-2020a-R-4.0.0
BEAR Apps Version
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.
- 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
- 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
For more information visit the ChAMP website.
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