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Cell Ranger ATAC


Loupe

10x Genomics
Chromium Single Cell ATAC

Cell Ranger ATAC4.0, printed on 12/22/2024

Loupe Browser ATAC Tutorial

Welcome to the Loupe Browser ATAC tutorial. In the next few pages, we will find significant features, analyze differential accessibility patterns, and explore substructure within a real-world dataset. Along the way, we'll touch on most of the features of Loupe Browser.

Setup

Before beginning the tutorial, make sure you have downloaded Loupe Browser. If this is your first time working with Loupe Browser, you can access the ATAC tutorial dataset by clicking on the ATACTutorial link on the Recent Files page as seen below.

Once the file is loaded you are familiar with some ATAC data concepts, click here to tour the user interface.

About the ATAC Tutorial Dataset

The ATAC tutorial dataset contains the results of a cellranger-atac run over a set of human peripheral blood mononuclear cells, with the standard Chromium™ Single-Cell ATAC protocol.

The key metrics include: