Flux
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A unified
scientific workspace.

Figures, presentations, literature, and papers.
Connected in one place. Built for you and your AI collaborators.

Get started with FluxTake a closer look
One project. Every part of the work.Explore the workspace
Flux Paper workspace with the neural-populations manuscript, project documents, and its composed neuroscience figure.View workspace
Write with your figures, citations, and working notes in reach. Explore Paper

01 / Paper

Room to think.
Tools to write.

From working notes to the final manuscript, write on a clean surface that keeps citations, figures, equations, and review close at hand. Underneath, your document stays an ordinary Quarto file.

  • Cite from your library as you write.
  • Keep figures and their references connected.
  • Review in the margin; export to HTML, PDF, or Word.
Explore the writing guide
A close view of the Paper document, with an original neuroscience manuscript and its multi-panel population-response figure.Enlarge
01A manuscript with the evidence in view.The source remains yours.

02 / Figure

A figure is more
than an image.

Compose publication figures on a precise, open canvas. With plots made by fluxplot, the lines, labels, and series remain meaningful parts you can select and refine.

  • Arrange panels at their physical publication size.
  • Style individual plot parts without rerunning the analysis.
  • Keep those styling choices when a linked source updates.
Explore the figure guide
Flux Figure canvas showing a composed scientific figure and the tools for editing its layout and appearance.Explore the detail
02The whole composition, down to the individual part.Composed in Flux · Public neuroscience data.
Try it: one plot, every part editableplots/advanced/16-tuning-landscape-2hz.svg
Direction tuning of six identified neurons at 2 Hz: eight measured means per cell with a smooth guide curve, one row per cell.
Rerun the analysis at

Select a curve to change its color, then choose another frequency. The data change; your styling stays. This is a real plot from the downloadable example project.

An eleven-panel scientific figure: a shaded mouse-brain surface with the visual areas painted on, three reconstructed neurons, a 143-cell response atlas across eight directions, example-cell traces with tuning roses, three-dimensional population trajectories, a similarity matrix, a ring network, response geometry, selectivity, frequency tuning and a rose of preferred directions. Inspect every panel
Inside the example From anatomy to population activity.One editable composition. Eleven panels, every part named.

03 / Slides

Give your result
a little time.

Send a figure to your deck and give it a timeline. Reveal a series, draw on network edges, and guide the audience through your result one step at a time.

Then insert the slide into a document. The explanation stays interactive in Paper and HTML; PDF and Word carry the opening still.

Explore the slides guide
A real Flux slideExplore it at your own pace

Follow the population. Choose a scene, then use the arrows to reveal its explanation. Four editable slides, presented with Flux’s own player.

Open on its own
Read the demonstration without playing it

The opening scene introduces responses from a neuronal population. Its steps reveal a stimulus-response heatmap, a network connecting cells with similar response profiles, and a short interpretation. The other scenes explore brain and cell anatomy, stimulus tuning, and low-dimensional population activity. All designs and prose are original; the underlying data are public Allen Institute data. This is an illustrative project, with anatomical context drawn from separate specimens and no claim of a new research finding.

Flux Slides authoring workspace with the neuronal-population scene, four-slide navigation, and editable animation steps.View the editor
Behind the explanation

Compose. Sequence. Share.

Bring a figure into your deck, give it its own layout, and author the steps. Reuse the result as an interactive slide inside your writing.

Read about slides in documents

04 / Library

A home for the
papers you find.

Keep a lasting collection across projects. Bring in references and PDFs, organize what matters, and find your way back through metadata or the text inside a paper.

  • Collect by DOI, import, web capture, or Zotero.
  • Search stored full text and open the matching page.
  • Cite into a project without rebuilding your library.
Explore the library guide
Flux Library with the illustrative research collection, paper metadata, and organization controls.Enlarge
04One collection, ready for the next question.Each project keeps its own cited subset.

05 / Reader

Stay with the idea.
Keep the evidence.

Read closely without losing your place. Follow a citation, annotate a passage, or inspect a figure beside the discussion. Keep the useful details connected to where you found them.

  • Read side by side with split panes and tabs.
  • Keep highlights and comments anchored to the paper.
  • Capture figure snips with their source provenance.
Explore the reader guide
Flux Reader displaying the original neuroscience example paper, with navigation and annotation tools alongside the page.Enlarge
05Read the paper. Follow the thread.The source stays in reach.

Connected by design

The work keeps moving.
The connections stay.

Five perspectives on one project. Move an idea from the literature into a figure, a manuscript, and a talk.

LibraryCite a referencePaper

The citation enters your document and its project bibliography.

FigureReference a figurePaper

A stable reference keeps the manuscript attached to its figure.

SlidesEmbed a slidePaper

Saved slide edits refresh the document; HTML preserves the steps.

A project is a folder

Familiar files.
Lasting work.

Your documents, plots, references, and context live in a project you can inspect. Flux’s compositions use readable files, and generated exports stay separate from their sources.

Understand the project model

Open the work behind the website

Meet the example project.

Neuronal networks flexibly encode diverse stimuli. A complete Flux project with the manuscript, thirty-three source plots, two composed figures, four animated slides, and public data. Download it, unzip it, and open the neural-populations folder in Flux.

Download the Flux project

FluxConfig

Your way of working.
Across projects.

Your library, reusable styles, and working context have a home of their own. FluxConfig brings that personal environment to every project, while each project keeps its own research and history.

Read about your library and configuration
Your research environmentFluxConfig
01FluxLibYour library & attachments
02ContextGuidance & working context
03PresetsReusable design choices
Neural populationsFiles · context · citations
Your next projectFiles · context · citations

One personal environment. Independent project folders.

AI, with context

A collaborator who can
pick up the thread.

An agent can read your project’s mission, working notes, and rules, then work with the same figures, slides, and files you use. Ask it to restyle a series or animate a plot, and review the result in your workspace.

You choose whether to bring an agent into the work, and which supported agent to use.

  1. 01

    Set the direction.

    The mission describes the question. The notebook carries decisions forward. Rules preserve what matters to you.

    MissionNotebookRules
  2. 02

    Work alongside it.

    Launch a principal agent in your terminal. It reads the project context and uses the available Flux tools.

    flux principal
  3. 03

    Review where you are.

    Comment on a passage or leave feedback on a figure. Keep the request connected to the work it concerns.

    Explore agent collaboration

Make room for the next idea

Your research.
In Flux.

Start with the installation guide, open a project,
and find your own way through the studio.

Get started with FluxView on GitHub