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No-code single-cell analysis

Single-cell RNA-seq analysis, without code

Exona runs on your machine or your cluster, so your data never leaves your hands.

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The Exona desktop app exploring a mouse single-cell dataset: a UMAP coloured by cluster beside the expression of the gene Acta2

Who it is for

Built for teams with or without bioinformaticians

Exona fits the way your lab already works, whoever runs the analysis.

  • Teams without a bioinformatician

    Wet-lab researchers analyse their own single-cell RNA-seq data in the desktop app, from 10x Genomics output to clusters and marker genes, without writing code. When a project needs more, our consultants work with you.

  • Teams with bioinformaticians

    Biologists run routine analyses themselves, so your bioinformaticians can focus on new methods. Custom compute plugins run Exona's analyses on your own cluster or HPC, following your IT rules.

What we offer

A desktop app, custom integrations and expert help

Start with the desktop app for everyday analysis, and add engineering or consulting when a project needs it.

  • Exona desktop app

    Import 10x Genomics data, then run quality control, normalization, clustering and UMAP in guided steps on Windows, macOS or Linux. Licensed per seat.

    Explore the desktop app

  • Custom compute plugins

    We build compute plugins that run Exona's analyses on your own servers, cluster or HPC, following your IT rules, as versioned releases available only to your organization.

    Discover custom integrations

  • Expert consulting

    On-demand bioinformatics analyses, per project, in close contact with your team.

    Learn about consulting

Why Exona

Four principles behind every analysis

  • No-code analysis

    Guided steps replace scripts. Exona installs and manages its own R and Python environment, so there is nothing to set up in a terminal.

  • Reproducibility and provenance

    Every step records its parameters, software versions and timestamps, and each project is a self-contained folder on your disk, with no lock-in.

  • Local or cluster/HPC

    Analyses run on your own machine, or on your own server or cluster through a compute plugin. No telemetry: your data stays in your hands.

  • Publication-ready plots

    Quality control, PCA, UMAP and gene feature plots drawn with ggplot2 and exported as high-resolution PNG figures.

How it works

From raw data to marker genes

One guided path through a standard single-cell RNA-seq analysis, with suggested settings where it matters.

  1. Import your data

    Load 10x Genomics Cell Ranger output, merge samples and add organism, condition and batch metadata.

  2. Check quality

    Review genes, UMIs and mitochondrial content per cell, with suggested cut-offs and before/after plots.

  3. Cluster and explore

    Normalize, run PCA and graph-based clustering at several resolutions, then explore the cells on a UMAP.

  4. Find marker genes

    Find the genes that set each cluster apart, then export the marker tables as CSV, XLSX or RDS files.

See Exona at work

A real analysis of two mouse samples, from 10x Genomics import to batch-corrected clusters.

Quality control in Exona after filtering: cells retained, median metrics, and violin plots of genes, UMIs, mitochondrial and ribosomal content before and after filtering
Quality control with suggested cut-offs
Walkthrough of a full analysis (waits for computation sped up)

See Exona on your own data

Tell us about your team and your data, and we will show you Exona in a live demo.

Request a demo