GeomxTools 1.0.0-foss-2021a-R-4.1.0

Tools for NanoString Technologies GeoMx Technology. Package provides functions for reading in DCC and PKC files based on an ExpressionSet derived object. Normalization and QC functions are also included.

Accessing GeomxTools 1.0.0-foss-2021a-R-4.1.0

To load the module for GeomxTools 1.0.0-foss-2021a-R-4.1.0 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load GeomxTools/1.0.0-foss-2021a-R-4.1.0

BEAR Apps Version

2021a

Architectures

EL8-cascadelakeEL8-haswellEL8-icelakeUbuntu20.04-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

  • GeomxTools 1.0.0
  • ggiraph 0.7.10
  • NanoStringNCTools 1.0.0
  • systemfonts 1.0.4

More Information

For more information visit the GeomxTools website.

Dependencies

This version of GeomxTools has a direct dependency on: foss/2021a R/4.1.0-foss-2021a R-bundle-Bioconductor/3.13-foss-2021a-R-4.1.0

Required By

This version of GeomxTools is a direct dependent of: BEAR-R-bio/2021a-foss-2021a-R-4.1.0

Last modified on 29th March 2022