Brady Johnston

@bradyajohnston • 16,955 subscribers

struc. biologist, scientific animator, creator of #MolecularNodes for #b3d he/him 🐘: [email protected] ⛅️ @bradyajohnston

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Brady Johnston

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Holograms on my poster at #IUCr2023 If you were unable to chat to me in the first session, will be around again tomorrow. #MolecularNodes #GeoemtryNodes #b3d

Preparing some videos for upcoming talks. I'll be in Aarhus and Cambridge in the next couple of weeks. Lots of talking about EM data inside of #blender3d using #MolecularNodes and #GeometryNodes to create clear visuals and beautiful animations. Feels cool to zoom around a cell

I'm giving a talk in Cambridge next week! If you are in the area, come along and say hello. I'll be talking about my journey through molecular graphics, with a big focus on the development and use cases of #MolecularNodes. Basically an hour of non-stop pretty molecular movies

Thanks to contributors on the GitHub, #MolecularNodes can now import .star files from RELION and cisTEM. You can take your EM images and instance proteins all across the scene, all inside of #Blender3d and #GeometryNodes Contributed by Johannes Elferich (

#MolecularNodes v2.5 is out, which adds support for importing Electron Microscopy densities into #blender3d as volumetric objects that work with #GeometryNodes. This is 6OGD / EMDB 20053 solved by PiperProteinProductions / Sarah Piper MN Release: 1/5

New version (2.8.0) of #MolecularNodes released earlier today. Lots of fixes, with an improvement &amp; overhaul of the biological assemblies and default cartoon styles #b3d #GeometryNodes

is this molecular dynamics 🤔🤔

Index of Nearest node finally in #blender3d simulation nodes branch, means you can finally do some ~~physics~~ inside of #GeometryNodes. Testing out some repulsion / attraction and creation of bonds. Maybe it won't be too long and we can do some rough MD in #MolecularNodes

Interactive protein simulation (simplified) running entirely on the GPU and piping the result into #GeometryNodes #b3d #MolecularNodes

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I'm almost done working on a new #GeometryNodes project ... a clean, logical API for creating node trees with code. Geometry, shader and compositor all supported. A clean minimal script that is logical to read and write, rebuilds the node trees interactively on the fly.

Refolding proteins with #blender3d 3.6 beta using using the new #SimulationNodes inside of #GeometryNodes and #MolecularNodes. Most MD literature ignores the molecular monkey heads that might be present on the nanoscale, but no longer

Secondary Structure cartoons are now part of #MolecularNodes ! v2.6.0: Every aspect of these are customisable. Width, thickness, colour, arrows / no arrows, cylinders. In love with the final result. Done entirely within #GeometryNodes and #Blender3d

I have been working like absolute crazy over the past two months for this - #MolecularNodes 4.2 is now released for #b3d 4.2 A huge number of new features - which I will cover some here. - Selections using MDAnalysis @mdanalysis.bsky.social selection language are updated live.

CryoEM density inside of #b3d and #MolecularNodes! Thanks to code from Alister Burt and Michael Douglass. Will be coming when Blender 3.5 is released later in March. Potential now also for crystallography electron density as well

Thanks to contributors on the GitHub, #MolecularNodes can now import .star files from RELION and cisTEM. You can take your EM images and instance proteins all across the scene, all inside of #Blender3d and #GeometryNodes Contributed by Johannes Elferich (

After trying on and off for almost a year, I have FINALLY got secondary structure cartoons for proteins working inside of #blender3d and #GeometryNodes. Need to test on beta-sheets, then it should make its way to #MolecularNodes pretty soon!

Combining #b3d and #Eevee with #JupyterNotebooks and #MolecularNodes, you can interactively style and render proteins from inside a live notebook. Actually works a lot better than I thought it might. #GeometryNodes inside of python notebooks is a cool combo

Just released a new #MolecularNodes version. A bunch of bug fixes, but two new features after multiple requests in some recent workshops. - Panel to download from the #AlphaFold database - Quickly change styles by right clicking #b3d #GeometryNodes

_finally_ figuring out how to make more stable simulations that work well with other inputs from #GeomtryNodes. Here 'simulating' some histones &amp; DNA being attacked by a carcinogenic monkey head #b3d #MolecularNodes

New version (2.8.0) of #MolecularNodes released earlier today. Lots of fixes, with an improvement & overhaul of the biological assemblies and default cartoon styles #b3d #GeometryNodes

Index of Nearest node finally in #blender3d simulation nodes branch, means you can finally do some physics inside of #GeometryNodes. Testing out some repulsion / attraction and creation of bonds. Maybe it won't be too long and we can do some rough MD in #MolecularNodes

_finally_ figuring out how to make more stable simulations that work well with other inputs from #GeomtryNodes. Here 'simulating' some histones & DNA being attacked by a carcinogenic monkey head #b3d #MolecularNodes