Your roadmap to single cell data analysis
Our software tools make processing, visualizing, and exploring your single cell data easy, even without bioinformatics help.
Transform raw sequences into single cell insights
Cell Ranger is a set of free analysis pipelines for processing Chromium Single Cell data.
Start with Cell Ranger to align reads, generate cell-feature matrices, perform clustering and secondary analysis
Cell Ranger can process raw sequencing data, perform QC, identify cell barcodes, and quantify gene expression levels at the single cell level.
Accelerate your time to results with Cloud Analysis, a web app for running Cell Ranger
Access Cell Ranger from your web browser with Cloud Analysis.
10 ways to dig into your data with Loupe Browser
Loupe Browser is a desktop application for Windows and MacOS that allows you to interactively visualize data.
Use Loupe to dive deeper into your Seurat analysis, no code required
LoupeR is an R package that creates a Loupe Browser file from a Seurat object.
With LoupeR, seamlessly explore Seurat data in Loupe without command-line data wrangling.
Find differentially expressed genes in treatment vs. control experiments
Easily perform and iterate on multi-sample comparisons.
Rapidly visualize expression of your favorite genes
Quickly plot your differential expression results
Explore interactive heat maps and violin plots of differentially expressed genes.
Easily annotate cell types
Start from scratch or refine existing cell types.
Generate fast and interactive differential expression analyses
Reanalyze subsets of data to find new cell types
Narrow in on your cell types of interest or filter out low quality data.
Create high-resolution figures in a few clicks
Loupe Browser makes it easy to generate SVG and PNG formatted images to share in presentations or publications.
Characterize cells using advanced filters
Hone in on particular sets of barcodes by creating a custom set of rules with boolean operators.
Explore many modalities of data, including single cell V(D)J, ATAC, and spatial gene expression
Loupe Browser supports the full suite of 10x Genomics single cell and spatial datasets.
Explore single cell data
Download diverse 10x Genomics datasets with various assays, samples, and species.
Aggregate of ~900k Human Non Small Cell Lung Cancer and Normal Adjacent Cells
SpeciesHumanTissueLungNumber of cells897,733Assay used
Alzheimer's Disease Mouse Model - Brain Coronal Sections from One Hemisphere Over a Time Course
SpeciesMouseTissueBrainNumber of cells33,459