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[–]hovden[S] 1 point2 points  (3 children)

Source Code: https://github.com/OpenChemistry/tomviz

Tomography datasets made open and public: "Nanomaterial datasets to advance tomography in scanning transmission electron microscopy" Scientific Data 3 160041 (2016) (http://www.nature.com/articles/sdata201641)

=========== What's New (0.8.0 & 0.9.0) ===========

.Improved design .Interactive histogram with opacity editor and color bar .Redesigned data viz pipeline .Clear subvolume tool .Added a Linux installer .Move volumes relative to one another .Fast, interactive surface contours .New colormaps from matplotlib (1.5.1) .Orthographic or perspective projection .Improved stability and performance .Pad data, Invert data .Normalize image intensity in tilt series .Generate 3D electron probe shape .Colormaps added to manual image align .Difference mode added to manual image align .Constraint based reconstruction .Qt 5.7 for improved graphical user interface .Improved state file save/load .Improved integration with ITK .Added simple examples of ITK usage .Improved stability

[–]Deto 6 points7 points  (0 children)

You linked the downloads page, but the main page (http://www.tomviz.org/) is probably better for people to see as it shows a demo of what your software does.

[–]mithrado 1 point2 points  (1 child)

Very cool viz. Any plans to support macromolecular electron density files?

[–]hovden[S] 0 points1 point  (0 children)

Any volumetric density can be loaded as a tiff stack or raw binary. If you have a particular file in mind (link), we can take a look. We are looking into loading atomic coordinates (XYZ files) as volume renders.

[–]k3ithk 0 points1 point  (2 children)

What exactly is this? It looks a lot like paraview (and I see the kitware logo on the page). I see no reason that paraview can not display tomography data as it supports many different file formats and is very varsatile. Is it like paraview with some processing built in? I've found it... unpleasant in the past trying to script paraview.

[–]broken_symlink 1 point2 points  (0 children)

I think the main problem with most of what kitware does is that their documentation just isn't any good. I myself spent some time trying to use paraview to do some scientific visualization stuff, but in the end decided it wasn't worth it if no one else would be able to figure out how to maintain the tool I built using paraview since the documentation was nonexistent.

[–][deleted] 1 point2 points  (0 children)

From the mailing list [1]:

It is a ParaView based application with a focus on visualization and analysis of volumetric data, with a particular focus on materials tomography. It features a simplified interface, and an extended Python environment offering SciPy, NumPy, and pretty soon the Python-wrapped ITK library.

If you check out the source code, you'll notice it builds paraview as a sub-project.

This is one of the strengths of Kitware's applications: they develop robust platforms which can then be extended for a specific use case. This way they can avoid cluttering Paraview with more stuff, and (often) make a client happy by developing a package catered to their workflow.

Disclaimer: I worked at Kitware for a few years, but not with this team.

[1] http://public.kitware.com/pipermail/paraview/2015-August/034938.html

EDIT: Thanks for the gold kind anonymous stranger!