ChIPseeker 1.28.3-foss-2021a-R-4.1.0

This package implements functions to retrieve the nearest genes around the peak, annotate genomic region of the peak, statstical methods for estimate the significance of overlap among ChIP peak data sets, and incorporate GEO database for user to compare the own dataset with those deposited in database.

Accessing ChIPseeker 1.28.3-foss-2021a-R-4.1.0

To load the module for ChIPseeker 1.28.3-foss-2021a-R-4.1.0 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load ChIPseeker/1.28.3-foss-2021a-R-4.1.0

BEAR Apps Version

2021a

Architectures

EL8-cascadelakeEL8-haswellEL8-icelake

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

  • aplot 0.1.2
  • ChIPseeker 1.28.3
  • DO.db 2.9
  • DOSE 3.18.3
  • enrichplot 1.12.3
  • ggfun 0.0.4
  • ggplotify 0.1.0
  • ggtree 3.0.4
  • GOSemSim 2.18.1
  • gridGraphics-0.5-1
  • scatterpie 0.1.7
  • shadowtext 0.1.1
  • tidytree 0.3.7
  • treeio 1.16.2
  • yulab.utils 0.0.4

More Information

For more information visit the ChIPseeker website.

Dependencies

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

Last modified on 13th January 2022