Support home
Xenium Explorer

Xenium Explorer

What is Xenium Explorer?

Explore Xenium In Situ data, from tissue macrostructures to subcellular resolution, with our interactive visualization tool. Pinpoint the locations of specific transcripts, check cell segmentation, and inform downstream analysis.

Download Xenium ExplorerTry Xenium Explorer Demo

New to Xenium Explorer? Getting Started with Xenium Explorer

Walk through Xenium Explorer features for investigating your in situ gene expression data.


Xenium Explorer Inputs

List of Xenium Explorer-compatible input files.

Navigate Xenium Explorer

Learn about Xenium Explorer and orient yourself to its interface and features.

Image Layer

Learn how to interact with image data.

Cells Layer

Learn how to interact with cell data.

Transcripts Layer

Learn how to interact with transcript data.

Check Data Quality

Find tips for examining cell segmentation, cell cluster assignment, and gene expression with Xenium Explorer.

Export Regions of Interest

Use Xenium Explorer lasso tools to narrow your focus to the cells that matter.

Save and Share

Save UI settings, transfer configurations to another window, and share settings with others.

Image Alignment

Align post-Xenium images or import images aligned with third-party tools.

Converting Images

Convert post-Xenium images to a format compatible with Xenium Explorer.

Xenium Onboard Analysis

Learn more about Xenium In Situ instrument analysis software.

Xenium Ranger

Reanalyze data from Xenium In Situ solutions.


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


Access free, publicly available data generated with Xenium In Situ Gene Expression solutions.

Analysis Guides

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