The new release of #BigVolumeBrowser (0.1.0) finally adds animation render functionality to it, plus some other navigation improvements and bug fixes.
Here is a movie I've made for the microtubule network (via ExM) in different cell types. Contact me if you want it for educational/research purposes.
Picture of a colored truck with a trailer containing lab equipment at a parking lot.
Today I was visiting @tischi.bsky.social &co in EMBL with a #BigVolumeBrowser workshop. Made a picture of this party truck that looked familiar @dudinlab.bsky.social
Following the famous Picasso recipe, currently I am in the process of shamelessly stealing #blender interface gizmos for #BigVolumeBrowser navigation
In the #BigVolumeBrowser news, there is a new awesome video tutorial about it made by certified magician Johanna M. Dela Cruz.
Check it out: www.youtube.com/watch?v=c0fr... (1/2)
Tried the vertex normals averaging for the smooth shading of meshes.
(Is this what you were talking about @herrsaalfeld.bsky.social?)
Nice explanation video here www.youtube.com/watch?v=PMgj...
#BigVolumeBrowser
Last project of the year: self blinking JF635 + lattice light sheet + #BigVolumeBrowser to deskew both volume and localization data (and render)
@zeiss-microscopy.bsky.social
Pfffffff. Chains of transformations are hard. It took me two releases to get the live deskew slider right and looking ok (hopefully) #bigvolumebrowser
New release of #BigVolumeBrowser. Many things were added: UI improvement (thanks to @kwolbachia.bsky.social feedback), pyramidization for BioFormats dataset, bug fixes.
Now there is an isosurface rendering mode (1/4)
Now with colors, the Dom Tower of Utrecht #BigVolumeBrowser @utrechtuniversity.bsky.social
Trying "surface" render mode for volumetric (segmentation here) data for #BigVolumeBrowser (not released yet).
Finally, the first public release of #BigVolumeBrowser, so after teasers, you can try it yourself. For details, please check the announcement post (1/2)
forum.image.sc/t/bigvolumeb...
Turns out, there are fully opened LIDAR point scans of the whole Netherlands surface available geotiles.nl With up to 25 cm.
It was hard not to load our building and around it into #bigvolumebrowser (22 M points + Fire LUT for height)
five logos, each representing three 3D cubes in green-gray-white palette in different orientations
six logos, each representing three 3D cubes in green-gray-white palette in different orientations
Internet people, please help me to decide on the logo for #bigvolumebrowser, a multi-volume 3D viewer plugin for Fiji I'm working on. Please vote by replying with a number or liking one that was already mentioned. My favorites are 6, 7, 8 and 10 so far.
Hello dear diary, today I've added some minor features, like highlighting boxes and canvas selecting objects + manual transform mode. Small update, mucho trabajo, but it should be helpful for user experience #bigvolumebrowser
One step at a time, first just trying to verify the upload of the LUT texture to the GPU. So I mapped it to whatever (here on a spot shape). Looks weird, but I like those intermediate "debug" results. It seems to work; now I can implement a proper depth color-coding. #bigvolumebrowser
Back to work on #bigvolumebrowser, I've added the import of point clouds that change over time. The test data generation was a pleasant detour into the world of attractors (Thomas' cyclically symmetric is shown).
I rarely see the "depth of field effect" for 3D microscopy datasets rendering. Tried to implement it as a weekend project. Curious, if it can be useful #bigvolumebrowser
Last feature for #bigvolumebrowser before vacation:
"inverted" clipping
But when things start to work, it's pretty satisfying #bigvolumebrowser
I'm also happy with "volumetric" volume rendering, as it can now properly occlude shapes depending on their depth (shown at the end of the video).
Comparing SMLM and volumetric (max proj) data in #bigvolumebrowser
Who is chilling in microtubules forest? #bigvolumebrowser
Some update on #bigvolumebrowser: now it is possible to transform volumes (and separate channels) and apply individual clipping to each of them.
ah, wront tag in the head, gonna add #bigvolumebrowser
Some early attempts to show 3D SMLM data in #bigvolumebrowser :
4M points from @shuangfu-shawn.bsky.social re-analysis of our LLS-paint data (see recent retweet).
It can be overlaid with any volumetric data input.
@christlet.bsky.social are you still interested in Fiji SMLM renderer?
Imported mesh of a very short filament traced in Imaris to #bigvolumebrowser.
And wow, look at how nice those rounded end segments are!
Good job, @oxfordinstruments.bsky.social programmers, nice attention to details!
Data comes from a post at the forum forum.image.sc/t/open-wrl-f...
Today I had a lot of fun implementing different types of mesh rendering for #bigvolumebrowser
As usual with GLSL, something as simple as a wireframe render was the most difficult to implement.
Some "should be simple" features of a 3D viewer, like "focus" and positioning of a cube in the center of the view, can be notoriously complex (well, for me). Here is my current work in progress. I thought I could do all math in my head, but eventually had to add debugging geometry. #bigvolumebrowser
The day I learned about the ambiguity of Euler angles extraction from a rotation matrix #bigvolumebrowser
