Release Notes for Loupe Browser

Loupe Browser is a powerful visualization software that provides intuitive analysis functionality you need to explore your 10x Genomics data.

Overview

Getting Started

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Tutorials

Release Notes

Loupe V(D)J Browser

Datasets

Analysis Guides

Loupe Browser

Learn about Loupe Browser and get oriented with its interface and features.

Introduction

Navigation for Single Cell Gene Expression

Navigation for Spatial Gene Expression

LoupeR is an R package developed by 10x Genomics that works with Seurat objects to create a Loupe Browser file.

LoupeR

Learn about product-specific analysis capabilities to quickly gain insights from your 10x data.

Assay Analysis

New Tutorial: Mapping the Tumor Microenvironment with Visium HD

HD Spatial Gene Expression

Spatial Gene Expression (v1/v2)

Single Cell Gene Expression & Flex

Single Cell Immune Profiling

Single Cell ATAC

Single Cell Multiome ATAC + Gene Expression

Visium Manual Alignment

Identify fiducials, perform tissue selection and align CytAssist and microscope images for Visium HD. You will then export a JSON file for Space Ranger analysis.

Visium HD manual alignment

Manually identify the fiducials in your Visium image and select spots under tissue. You will then export a JSON file for Space Ranger analysis.

Manual Fiducial Alignment and Tissue Detection (Visium v1/v2)

Align your CytAssist image and microscope image. After you complete this step, you can either export a JSON file for Space Ranger automated fiducial and tissue detection, or continue to Visium Fiducial Alignment.

Manual CytAssist Image - Microscope Image Alignment (Visium v1/v2)

Visium manual alignment for Space Ranger

Loupe Browser is a powerful visualization software that provides the intuitive functionality you need to explore and analyze your 10x Genomics Chromium and Visium data. You can also convert your Seurat objects into Loupe Browser files using the LoupeR package.

What is Loupe Browser?

<Text as={'p'} size={'large'} weight={'medium'}>Loupe Browser v8.1 is now available!</Text>

View the latest updates to Loupe Browser.

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