diff --git a/bash.scripts/sc_FullAnalysis-D27PrF.sh b/bash.scripts/sc_FullAnalysis-D27PrF.sh new file mode 100755 index 0000000000000000000000000000000000000000..34714385c9d31b40390ed996d6670d58b2f06cd5 --- /dev/null +++ b/bash.scripts/sc_FullAnalysis-D27PrF.sh @@ -0,0 +1,25 @@ +#!/bin/bash +#SBATCH --job-name R_FullAnalysis +#SBATCH -p 256GB,256GBv1,384GB +#SBATCH -N 1 +#SBATCH -t 7-0:0:0 +#SBATCH -o job_%j.out +#SBATCH -e job_%j.out +#SBATCH --mail-type ALL +#SBATCH --mail-user gervaise.henry@utsouthwestern.edu + +module load R/3.4.1-gccmkl + +Rscript ../r.scripts/sc_Demultiplex.R --p="D27PrF" --d=3 +Rscript ../r.scripts/sc_Seurat.Score.CellCycle.R --p="D27PrF" +Rscript ../r.scripts/sc_QC.R --p="D27PrF" +Rscript ../r.scripts/sc_Cluster.R --p="D27PrF" --pc=0 +Rscript ../r.scripts/sc_PC.Score.Stress.R --p="D27PrF" --r=0.5 --pc=0 --u=TRUE +Rscript ../r.scripts/sc_QuSAGE.Lineage.R --p="D27PrF" --gs="sc" --r=0.1 --s=NA +Rscript ../r.scripts/sc_LineageSubClust.R --p="D27PrF" --pc=0 +Rscript ../r.scripts/sc_QuSAGE_EpiSubClust.R --p="D27PrF" --r=0.2 --s=NA --sc=TRUE +Rscript ../r.scripts/sc_QuSAGE_StSubClust.R --p="D27PrF" --r=0.2 --s=NA --sc=TRUE +Rscript ../r.scripts/sc_MergeSubClust.R --p="D27PrF" --e="sc" --s="sc" +Rscript ../r.scripts/sc_PC.Score.NE.R --p="D27PrF" --u=TRUE +Rscript ../r.scripts/sc_DEG.R --p="D27PrF" +Rscript ../r.scripts/sc_Tables.R --p="D27PrF"