SingleR 1.0.6-foss-2019b-R-3.6.2

A computational method for unbiased cell type recognition of scRNA-seq. SingleR leverages reference transcriptomic datasets of pure cell types to infer the cell of origin of each of the single cells independently. SingleR's annotations combined with Seurat, a processing and analysis package designed for scRNA-seq, provide a powerful tool for the investigation of scRNA-seq data

Accessing SingleR 1.0.6-foss-2019b-R-3.6.2

To load the module for SingleR 1.0.6-foss-2019b-R-3.6.2 please use this command on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs):

module load SingleR/1.0.6-foss-2019b-R-3.6.2

BEAR Apps Version

2019b

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 Cloud and CaStLeS 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

  • ExperimentHub 1.12.0
  • SingleR 1.0.6

More Information

For more information visit the SingleR website.

Dependencies

This version of SingleR has a direct dependency on: foss/2019b R/3.6.2-foss-2019b R-bundle-Bioconductor/3.10-foss-2019b-R-3.6.2

Required By

This version of SingleR is a direct dependent of: BEAR-R-bio/2019b-foss-2019b-R-3.6.2

Last modified on 22nd April 2020