Your journey to whole transcriptome spatial insights
Our Visium Spatial Software Suite allows you to analyze and visualize spatial gene and protein expression data produced by the Visium Platform, even without bioinformatics help.
Translate sequencing data into gene expression-aligned images
Space Ranger is a set of analysis pipelines that process Visium Spatial Gene Expression data with brightfield and fluorescence microscope images.
Align reads and process data with Space Ranger
Process Visium Spatial Gene Expression (GEX) and Protein Expression (PEX) data with brightfield and fluorescence images to align reads, generate feature-barcode matrices, and perform secondary analysis including clustering and differential gene expression.
10 ways to explore your spatial gene expression data with Loupe Browser
Loupe Browser allows you to interactively visualize spatial data from Space Ranger output.
Explore gene expression clusters in the tissue context
Map the expression of thousands of genes onto your microscope H&E or IF image
Identify gene signatures of neighboring regions
Annotate your tissue based on morphology
Define cell types with automated spot deconvolution
Space Ranger performs reference-free spot deconvolution to enable out-of-the-box cell type level analysis in Loupe.
Find spatially variable genes in a few clicks
Space Ranger identifies genes with unique spatial patterns, which can be visualized in Loupe for new target gene discovery.
Dive deeper into regions of interest
Characterize immune cells with protein co-detection
The Visium Gene and Protein detection kit enables characterization of immune cells in distinct tissues with user friendly protein thresholding in Loupe.
Select tissue regions by gene or protein thresholds
Create high-quality figures for publications
Loupe Browser makes it easy to generate SVG and PNG formatted images to share in presentations or publications.
Discover spatial data
Explore diverse 10x Genomics datasets with various assays, samples, and species.
Mouse Embryo (FFPE)
SpeciesMouseTissueEmbryoNumber of spots6,434Assay used
Human Breast Cancer (FFPE)
SpeciesHumanTissueBreastNumber of spots4,169
Mouse Tissue Microarray (FFPE)
SpeciesMouseTissueKidney, BrainNumber of spots2,805Assay used
Visium Spatial Platform
The Visium platform enables unbiased molecular profiling of frozen and fixed tissue sections, simple tissue handling, sensitive gene detection, and user-friendly software for visualizing gene expression.