R-Studio loading libraries

We build R libraries for some packages in R v4.2.1, you can simply load this on your R-Studio/R on jubail.

Launch Rstudio on HPC OOD GUI environment or you can load the R environment on your command line in jubail as follows. Note:- If you install R on a different version, there will be some conflits. We recommend to stay in R v4.2.1

To load in jubail in CLI ( Command Line Interface ) .. code:: bash

module load gencore/1 module load Miniconda3/4.7.10 source activate /scratch/gencore/conda3/envs/RStudio

Seurat

R toolkit for single cell genomics.

b) 5.0.0

.libPaths("/scratch/gencore/software/RStudio/Seurat/5.0.0")
library("Seurat")

To verify the library path is set or not using

.libPaths()

b) 4.2.0

.libPaths("/scratch/gencore/software/RStudio/Seurat/4.2.0")
library("Seurat")

To verify the library path is set or not using

.libPaths()

c) 3.2.3

.libPaths("/scratch/gencore/software/RStudio/Seurat/3.2.3")
library("Seurat")

To verify the library path is set or not using

.libPaths()

d) 2.3.0

.libPaths("/scratch/gencore/software/RStudio/Seurat/2.3.0")
library("Seurat")

To verify the library path is set or not using

.libPaths()

Monocle

R toolkit for single-cell RNA-Seq analysis.

a) 2.26.0

.libPaths("/scratch/gencore/software/RStudio/Monocle/2.26.0")
library("monocle")

To verify the library path is set or not using

.libPaths()

Dupradar

R toolkit for duplication rates in RNA-Seq datasets.

a) 1.28.0

.libPaths("/scratch/gencore/software/RStudio/Dupradar/1.28.0")
library("dupRadar")

To verify the library path is set or not using

.libPaths()