Cell Ranger 3.0 (latest), printed on 02/19/2020
Loupe V(D)J Browser is a desktop application for Windows and MacOS that allows you to analyze, search, and visualize V(D)J sequences and clonotypes from single cell 5′ data produced by the 10x Chromium Platform. You can use it to quickly explore the clonality and diversity of T-cell receptors at the single-cell level. Loupe is named for a jeweler's loupe, which is used to inspect gems.
|10x Chromium||Sequencer||10x Cell Ranger||10x Loupe V(D)J Browser|
|Cell Suspension||Barcoding & Library
|Sequence library||Pipelines||Analysis & Visualization|
Within Loupe V(D)J Browser, you will be able to quickly determine the most common paired alpha and beta TCR chains or heavy and light BCR chains within your sample, search for motifs within CDR3 regions, detect variants within V(D)J transcripts, and validate read support for clonotype consensus sequences through an embedded version of IGV.js:
To find out how to use Loupe V(D)J Browser to explore your lymphocyte data, start the tutorial.