NITRC MeshView for brain atlases Forum: general

How to view a point cloud in cross section

Byung Jun Yang — Fri, 08 Dec 2023 6:52:06 GMT

<p>As you can see in the video, the point clouds are stacked, but I want to see only the point clouds located in a cross-section of the brain. Is this possible?</p>

RE: Exporting MeshView

Gergely Csucs — Mon, 01 May 2023 14:29:41 GMT

Hi,

I'm sorry about answering so late, and on top of that it's a no. Showing sections together with the atlas in 3D is an idea which I want to do but never find the time. And I simply don't know Arivis.
However if you happen to be a QuickNII user, you may want to try if Rembrandt Bakker's "Brain Composer" does what you need: https://scalablebrainatlas.incf.org/composer/?template=ABA_v3 (it supports uploading QuickNII data under "Import file from my computer")

I hope this helps a little, best regards,
Gergely

Exporting MeshView

Izzy Ferenczi — Thu, 23 Mar 2023 11:23:38 GMT

Hello,
I have a few queries regarding MeshView. Firstly is it possible to superimpose raw pngs onto the MouseBrain Atlas, as well as the json files? Secondly, Is it possible to export the data to then visualize it in Arivis as well?

Many thanks!

RE: Welcome to General forum for MeshView

Gergely Csucs — Tue, 09 Nov 2021 11:11:00 GMT

Hi,

I hope you both get this mail - I didn't get yours because as it seems I wasn't "subscribed" to the forum...
The good news is that WHSv3 exists, https://www.nesys.uio.no/MeshView/meshview.html?atlas=WHS_SD_rat_atlas_v3 is the link for it.
In fact even the brand new WHSv4 atlas is available: https://www.nesys.uio.no/MeshView/meshview.html?atlas=WHS_SD_rat_atlas_v4

Sorry for the inconvenience, I'm subscribed to the forum now, at least that's what I hope.
Best regards,
Gergely

RE: QUINT workflow visualization & Waxholm V3 support?

Anh Nguyen — Fri, 10 Sep 2021 12:35:53 GMT

[color=#000000]Hi,[/color]

[color=#000000]I'm doing similar analysis and having the same doubts. Would love to know if there's any workarounds/alternatives.

Best,[/color]
[color=#000000]Anh.
[/color][i]Originally posted by dpalm010:[/i][quote]Hi, I've just reached the end of the QUINT workflow and have been pointed to MeshView as a visualization tool for the output. I can't seem to find Waxholm v3 in MeshView- Is there support for the latest Waxholm atlas version? If not, are there other tools you compatible with the QUINT workflow that you can recommend?[/quote]

QUINT workflow visualization & Waxholm V3 support?

dpalm010 — Sat, 04 Sep 2021 20:03:28 GMT

Hi, I've just reached the end of the QUINT workflow and have been pointed to MeshView as a visualization tool for the output. I can't seem to find Waxholm v3 in MeshView- Is there support for the latest Waxholm atlas version? If not, are there other tools you compatible with the QUINT workflow that you can recommend?

Welcome to General forum for MeshView

Gergely Csucs — Thu, 11 Apr 2019 10:11:37 GMT

We are trying to start with a single forum, with no particular categorization for now.