CellRanger¶
Cell Ranger is a set of analysis pipelines that processes Chromium single cell 3’ RNA-seq output to align reads, generate gene-cell matrices and perform clustering and gene expression analysis.
Environment Modules¶
Run module spider CellRanger to find out what environment modules are available for this application.
System Variables¶
- HPC_CELLRANGER_DIR - installation directory
- HPC_CELLRANGER_BIN - executable directory
- HPC_CELLRANGER_REF - reference data directory
Available reference datasets: ercc92, GRCh38, hg19, hg19_and_mm10, mm10