Cell Ranger DNA, printed on 03/26/2023
| Analysis software for the 10x Genomics single cell DNA product is no longer supported. Raw data processing pipelines and visualization tools are available for download and can be used for analyzing legacy data from 10x Genomics kits in accordance with our end user licensing agreement without support. |
First please carefully read Achieving Success with the 10x Genomics Chromium Single Cell CNV Solution.
The Chromium Single Cell CNV Solution provides a comprehensive, scalable approach to high resolution copy number profiling of hundreds to thousands of cells in a single sample.
In support of this, the Chromium Single Cell CNV Software Suite enables aligning single cell DNA sequencing data produced by a Chromium System to a reference genome and investigating copy number variation (CNV) accurately down to 2Mbp for a single cell, and down to 200kbp for clusters of cells. The visualization tools allow identification and exploration of single cells and groups of cells defined by their mutual similarity. The package includes:
Cell Ranger DNA Pipelines
A set of analysis pipelines that perform sample demultiplexing, barcode processing, read alignment, copy number estimation on single cells and groups of cells defined by hierarchical clustering.
Loupe scDNA Browser
An interactive visualization tool to browse hierarchically clustered single cell copy number profiles, investigate genomic heterogeneity across cells, evaluate sub-populations of cells and interrogate genomic variability in regions of interest.