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/work2/projects/BioITeam/projects/courses/rnaseq_course/day_5_single_cell_data Script: seuratTotalScript5k.mod.R Data (after preprocessing by cellRanger): filtered_feature_bc_matrix Results generated: results #You can copy over the data to your directory: cds cd my_rnaseq_course cp -r /work2/projects/BioITeam/projects/courses/rnaseq_course/day_5_single_cell_data . |
Unfortunately, the packages required to run Seurat on TACC are currently not loading properly (could be because they are out-of-date). So, we are not going to run this script today.The script we are going to run is an older version (Because Seurat on TACC is an older version). You can kick it off by doing the following:
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module load seurat-scripts/ctr-0.0.5--r341_0
#OPEN AN IDEV SESSION:
idev -m 120 -q normal -A OTH21164 -r RNAseq2
R CMD BATCH seuratTotalScript5k.mod.3.4.R |
The script does the following:
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