Tutorials
Get Started with Cell Ranger
Cell Ranger installation
Cell Ranger mkfastq
Convert BCL to FASTQ with Cell Ranger mkfastq
Cell Ranger count
Analyze Gene Expression and Feature Barcode data with Cell Ranger count
Cell Ranger aggr
Aggregating data with Cell Ranger aggr
Cell Ranger reanalyze
Rerun secondary analysis for a completed cellranger count or aggr run with different parameters
Cell Ranger mkref
Build a custom reference using Cell Ranger mkref
Cell Ranger multi for 3' Cell Multiplexing
Analyze cell multiplexing data with Cell Ranger multi
Cell Ranger multi for Immune Profiling
Analyze V(D)J and 5' GEX with Cell Ranger multi
Cell Ranger multi for BEAM-Ab
Analyze your GEX + VDJ + B cell Antigen Capture libraries with Cell Ranger multi
Cell Ranger multi for BEAM-T
Analyze your GEX + VDJ + T cell Antigen Capture libraries with Cell Ranger multi
Cell Ranger vdj
Analyze V(D)J libraries with Cell Ranger vdj
Capturing Neutrophils
Capturing Neutrophils in 10x Single Cell Gene Expression Data
Example Data Analysis
Analyze scRNA-Seq Data From a Publication Using 10x Software
Tumor Microenvironment Data Analysis and Visualization
Analysis and visualization of data in the tumor microenvironment application note using the Loupe and Loupe V(D)J Browsers
Cell Ranger Pipeline Telemetry
Understand pipeline telemetry data collection and learn how to disable it if needed