[Tomviz] tomviz reconstructions publication quality

Marcus D. Hanwell marcus.hanwell at kitware.com
Mon Aug 13 16:38:53 EDT 2018

Hi Linford,

PNG is a good format to export the 3D view, Export Screenshot in 1.4.0
offers a resolution, and a choice of palette. Transparent can be great for
integrating into larger figures, and PNG is an ideal format in my opinion.

I would increase the resolution, but for things like volume rendering,
surfaces, etc it is not easy to export to a vector-based format you might
want to use in Illistrator, but with a high resolution raster rendering
with a transparent background you should be able to make it work.

I hope that helps, you likely want to push above the default resolution
(and we should probably increase that a little).



On Mon, Aug 13, 2018 at 4:31 PM Linford Briant <linfordbriant at gmail.com>

> Hi Marcus,
> Thanks for the info below, and sorry about my ignorance. I didn't realise
> tomviz was capable of this already!
> Basically, as you may have gathered, I'm not familiar with the export
> process and formats in tomviz. I have been exporting Figures as .PNG which
> is obviously not good (this was the file format I was meant to attached,
> not a .pdf). What format would you recommend I export it as if I want to
> make a figure in, say, illustrator or coreldraw? Are you exporting images
> simply via File > Export Image > etc? Also, how do you change the quality
> of the image exported?
> Any help on this would be appreciated.
> Kind regards,
> Linford
> On 13 Aug 2018 9:09 p.m., "Marcus D. Hanwell" <marcus.hanwell at kitware.com>
> wrote:
> Hi,
> On Mon, Aug 13, 2018 at 5:16 AM Linford Briant <linfordbriant at gmail.com>
> wrote:
>> Dear Tomviz,
>> I have used microscopy image browser to segment my objects, and used
>> tomviz to 3D render my objects (pdf attached).
> I don't think the PDF made it through, so I can't see what you mention.
>> Now I want to export these images into good quality images that can be
>> published. However, the exported pngs are low quality.
>> What do you mean here? You can use the palette to change the color
> palette (white, black, gray background etc). You can increase the
> resolution of the images to be exported. 3D is usually rendered to a raster
> format, and so to some extent when publishing you will need to choose a
> resolution. Tomviz has been used to produce images used on a few journal
> covers to date.
>> How would you recommend I make my tomviz reconstructions into a
>> publishable format? Do I need to go via a different software? If so, which?
>> You may need to start by being more specific on what you define as "good
> quality". We have seen some great visualizations produced with Tomviz that
> have been published.
> Thanks,
> Marcus
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