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Cell Ranger

Cell Ranger

What is Cell Ranger?

A set of analysis pipelines that perform sample demultiplexing, barcode processing, single cell 3' and 5' gene counting, V(D)J transcript sequence assembly and annotation, and Feature Barcode analysis from single cell data.

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Cell Ranger v8.0 introduces support for the analysis of GEM-X libraries.

Cell Ranger v7.2 is the last version to support the analysis of LT (low throughput) libraries.

Barcode Enabled Antigen Mapping (BEAM) is unsupported with GEM-X chemistry; therefore, Cell Ranger does not support BEAM/Antigen Capture libraries produced with this chemistry.



Learn more about input files required to run Cell Ranger

Running Pipelines

Learn more about how to run Cell Ranger


Learn more about the output files generated by Cell Ranger


View all tutorials

Algorithms overview

Overview of algorithms.


Advanced pipeline content for Cell Ranger.

Release Notes

View the latest updates to Cell Ranger.


Browse Q&As from the 10x Genomics support team.


View terms and definitions relevant to Single Cell products.


Access free public Chromium data from 10x Genomics.

Analysis Guides

A collection of introductions, tutorials, and blogs for data analysis beyond software.

Loupe Browser

Loupe Browser is a desktop application that allows you to interactively visualize data.