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Choosing a Pipeline

Choosing a Pipeline

  • Xenium Ranger provides a set of analysis pipelines that reprocess Xenium In Situ Gene Expression data.
  • Start by choosing a computing option to set up and run Xenium Ranger.

Click the links below to read documentation on each pipeline. The xeniumranger subcommand line arguments are described on the Xenium Ranger command line arguments page.

xeniumranger relabelRelabel decoded transcript gene labels.
xeniumranger resegmentModify the Xenium Onboard Analysis cell segmentation results.
xeniumranger import-segmentationImport 2D segmentation results from community-developed tools and regenerate Xenium Onboard Analysis output files.