v3.4.1 (June 2025)

v3.4.0 (April 2025)

v3.3.0 (April 2025)

v3.2.1 (January 2025)

v3.2.0 (December 2024)

v3.1.0 (September 2024)

v3.0.2 (July 2024)

v3.0.1 (July 2024)

v3.0 (June 2024)

v2.0 (March 2024)

v1.9 (January 2024)

v1.8 (December 2023)

v1.7 (October 2023)

v1.6 (September 2023)

v1.5 (July 2023)

v1.4 (May 2023)

v1.3 (April 2023)

v1.2 (March 2023)

v1.1 (February 2023)

Xenium Onboard Analysis

Xenium

Gene Expression

Our diverse panel menu of pre-validated biologically relevant targets can be customized with up to 100 additional targets. Standalone custom panels can also be designed for your specific research questions.

Expertly curated, easily customizable in situ panels

Xenium Analyzer

Powerful in situ profiling platform using curated panels, powerful visualization software, and easy-to-follow workflow.

In Situ Gene Expression

Enables subcellular profiling of 100s of RNA targets from Fresh Frozen or FFPE tissues.

Details about the algorithms and output files generated by the Xenium Onboard Analysis pipeline.

See what's new in the Xenium Analyzer instrument firmware, user interface, and onboard analysis.

Release Notes for Xenium Analyzer

Overview

Getting Started

Analysis

Algorithms

Example Datasets

Release Notes

Advanced

Xenium Explorer

Xenium Ranger

Xenium Panel Designer

Analysis Guides

Xenium Onboard Analysis 3.4

Estimate and Monitor Xenium Analyzer Instrument Run Time

Estimate and Monitor Run Time

A table of Xenium onboard analysis pipeline output files.

Outputs at a Glance

Overview of all Xenium onboard analysis pipeline output files.

Understanding Xenium Outputs

Overview of the interactive Xenium analysis summary output file metrics and plots.

Analysis Summary Overview

Troubleshooting guide for the Xenium analysis summary alerts.

Analysis Summary Alerts

Storing Xenium raw data for reanalysis or grant requirements.

Archiving Xenium Data

The Xenium In Situ software suite is a set of software applications for analyzing and visualizing in situ gene expression data produced by the Xenium Analyzer. The Xenium Onboard Analysis pipeline enables simultaneous on-instrument data collection and analysis.

What is Xenium Onboard Analysis?

View the latest updates to Xenium Onboard Analysis algorithms.

View the latest updates to Xenium Onboard Analysis.

Visualize data from Xenium In Situ solutions.

Reanalyze data from Xenium In Situ solutions.

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

A collection of introductions, tutorials, and blogs for data analysis beyond 10x Genomics software.