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10x Genomics
Spatial Gene Expression

Overview of Visium Software

The Visium Spatial Gene Expression Software Suite is a set of software applications for analyzing and visualizing spatial gene expression data produced by the 10x Genomics Visium Platform. The software suite includes Space Ranger and Loupe Browser.

Space Ranger

Analysis pipelines that perform sample demultiplexing, image alignment, barcode processing, and gene counting.

INTRODUCTION DOWNLOAD TUTORIALS
What is Space Ranger?

Download Links
System Requirements
Installation

Setup Space Ranger
count for FF
count for FFPE
RUNNING PIPELINES ALGORITHMS OVERVIEW OTHER RESOURCES
Computing Options
mkfastq
count (Spatial Gene Expression)
aggr
Understanding Output
Image Processing
Gene Expression
Questions & Answers
Datasets



Loupe Browser

Easy-to-use visualization software that offers interactive support for upstream image processing required for Space Ranger as well as downstream visualization and analysis of your spatial gene expression data. No programming required.

INTRODUCTION IMAGE PROCESSING TUTORIALS
What is Loupe Browser?
Download Link
Manual Alignment Getting Started