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- What is Cell Ranger?
What is Feature Barcoding?- Installation
- System Requirements
- Downloads
- Running Pipelines
- Generating FASTQs
- Specifying Input FASTQs
- Single-Sample Analysis
- Feature Barcoding Analysis
- Multi-Sample Aggregation
- Customized Reanalysis
- Map of the Pipeline
- Algorithms Overview
- Understanding Output
- Summary
- Analysis
- Matrices
- BAM
- Molecule Info
- CRISPR Outputs
- Antibody Outputs
- Metrics
- Downstream Analysis
- Using R
- Using Python
- Glossary of Terms
- Troubleshooting
10x Genomics
Chromium Single Cell Gene Expression
Cell Ranger3.0, printed on 12/22/2024
Cell Ranger Metrics
Cell Ranger computes sequencing quality and application results metrics for each supported library type. Supported library types are "Gene Expression" for standard gene expression data, and the Feature Barcoding-specific library types "Antibody Capture", "CRISPR Guide Capture", and "Custom" (user-defined assays that are neither Antibody nor CRISPR). Feature Barcoding metrics will be computed and displayed only when one of these library types was used in the assay.
Details of the metrics computed for each supported library are described here: Gene Expression Metrics, Antibody Metrics, CRISPR Metrics, and Custom Metrics.