karyoploteR 1.10.5-foss-2019a-R-3.6.0

karyoploteR creates karyotype plots of arbitrary genomes and offers a complete set of functions to plot arbitrary data on them. It mimicks many R base graphics functions coupling them with a coordinate change function automatically mapping the chromosome and data coordinates into the plot coordinates. In addition to the provided data plotting functions, it is easy to add new ones.

Accessing karyoploteR 1.10.5-foss-2019a-R-3.6.0

To load the module for karyoploteR 1.10.5-foss-2019a-R-3.6.0 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load karyoploteR/1.10.5-foss-2019a-R-3.6.0

BEAR Apps Version

2019a

Architectures

EL8-cascadelake — EL8-haswell — Ubuntu20.04-haswell

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.

Extensions

  • bamsignals 1.16.0
  • bezier 1.1.2
  • karyoploteR 1.10.5
  • regioneR 1.16.4

More Information

For more information visit the karyoploteR website.

Dependencies

This version of karyoploteR has a direct dependency on: foss/2019a R/3.6.0-foss-2019a R-bundle-Bioconductor/3.9-foss-2019a-R-3.6.0

Last modified on 27th September 2019