Cell Ranger, printed on 11/14/2024
The Chromium Single Cell Immune Profiling Software Suite is a set of analysis and visualization tools for examining the immune repertoire with Gene Expression and Feature Barcode data produced by the 10x Chromium Platform. The software suite includes Cell Ranger, Loupe V(D)J Browser, and Loupe Browser.
A set of analysis pipelines that perform sample demultiplexing, V(D)J transcript sequence assembly and annotation, gene expression, and Feature Barcode analysis from Single Cell Immune Profiling data.
| New in Cell Ranger v7.0: Intronic reads are counted by default for whole transcriptome gene expression data. For more information, see our recommendation on including introns for gene expression analysis page. |
| After June 30, 2023, new Cell Ranger releases will no longer support Targeted Gene Expression analysis. |
10x Genomics Cloud is the recommended platform for running single cell pipelines for most new customers. Use your web browser to easily process FASTQ files into Cell Ranger output files. Currently available only in the United States and Canada.
Loupe Browser is a visualization tool to find significant genes, cell types, and explore substructures in single cell data, interactively.
Loupe V(D)J Browser is an interactive visualization tool to investigate clonotypes, examine V(D)J transcripts and detect variants within clonotypes.