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2025-05-21

The Cell Ranger version 9.0.1 pipeline is now available for flex RNA runs in HISE. For full details, review the official 10x Genomics release notes. The previous version of Cell Ranger remains available. To continue using the previous version, keep your submission sheet as is. To update to the new version, specify frna-v3 in the Type column of the Header tab on your Submission Sheet.

Questions? See Use Cell Ranger, or click the Support button on any page of the HISE user documentation.

2025-04-28

2025-04-16

The Xenium pipeline enables spatial transcriptomics analysis within HISE, converting raw Xenium data into formats that can be analyzed, explored, and visualized. For details, see Use the Xenium Pipeline (Tutorial).

2025-04-03

Our new documentation, Use the Conda Environment (Tutorial), shows you how to create and share a customized Conda environment.