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maweigert / spimagine

GPU accelerated volume rendering / processing in Python
BSD 3-Clause "New" or "Revised" License
117 stars 17 forks source link

Overlay microscopy channels with spimaging #13

Open ghost opened 7 years ago

ghost commented 7 years ago

Hi,

I recently started to use spimagine for volume rendering of microscopy data and it works perfectly! However, I was wondering if there is an implemented (or easy) way to overlay channels ( image with shape 3, 48, 2048, 2048 (c,z,y,x)) (similarly as what you have in ClearVolume-ImageJ)?

maweigert commented 7 years ago

Hi Cedric,

Great to hear it's useful for you! However multichannel overlay is currently not implemented - it's on the top of the bucket list though.

What I normally do is to render the channels separately using the same keyframe animation states and then combine the resulting images with imagemagick.

You can do this by open the keyframe panel, select all the keyframes and then save the states as a json file. When you open the next channel, you can just drag and drop the json file on the keyframe panel.

I'll leave the issue open for my notice ;)

ghost commented 7 years ago

Thank you for your answer, spimagine is very useful! I usually to work with Mayavi which is very powerful but really hard to work with.

maweigert commented 7 years ago

Mayavi which is very powerful but really hard to work with.

D'accord with both :)

jni commented 6 years ago

Just adding my 👍 to this request... ;) I really need this!

Hi @maweigert and @cespenel! 👋

Wanpeng-Wang commented 6 years ago

Hi Martin,

Could you share a bit more about how you processed the images? Did you use the composite operator? I put the images in two folders. I guess I can loop through the folders. How did you do it?

Thanks!