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Running cellranger on Amarel
For 10X scRNAseq experiments, you can process fastq files on the Rutgers Amarel HPC system using the pre-installed cellranger software package. Here's how. Cellranger is available from the "community" modules, so first you'll need to add these to the standard list of modules. module use /projects/community/modulefiles The pre-installed module may not be the current version of the software. To see which versions are loaded, type: