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help > RE: loading 4D data
Jan 28, 2013 10:01 PM | Hanchuan Peng
RE: loading 4D data
First, it is unclear what you meant by "4D". There are several
cases.
(1) If the 4D means X,Y,Z,C where C is color channel, then you can simply visualize in a 3D view window. However, when C is greater than 3, you will need a blending function. In Vaa3D theer are several ways to do that, e.g. the atlas manager.
(2) If 4D means X,Y,Z, and T, where T is time, then you can use the 3D viewer to see it, the time scrollbar will appear at the bottom of a 3D viewer.
(3) If 4D means X,Y, C and T, then similar to (2), you can use the time scroll bar to see the data.
Second, if your files have the sequence like xxx_01.tif, xxx_02.tif, ... instead of using the 5D stack converter, you can import the sequence using Main Menu -> File -> Import -> Impotrnt general Image Series (the first menu item i=there). Then if your data is temporal data , then select the bottom option in the pop-up dialog to be "Pack in Channel". Then when you produce the 3D viewer, you can see the temporal scroll bar, while you are visualizing data in 3D.
-Hanchuan
Originally posted by Crystal Davey:
(1) If the 4D means X,Y,Z,C where C is color channel, then you can simply visualize in a 3D view window. However, when C is greater than 3, you will need a blending function. In Vaa3D theer are several ways to do that, e.g. the atlas manager.
(2) If 4D means X,Y,Z, and T, where T is time, then you can use the 3D viewer to see it, the time scrollbar will appear at the bottom of a 3D viewer.
(3) If 4D means X,Y, C and T, then similar to (2), you can use the time scroll bar to see the data.
Second, if your files have the sequence like xxx_01.tif, xxx_02.tif, ... instead of using the 5D stack converter, you can import the sequence using Main Menu -> File -> Import -> Impotrnt general Image Series (the first menu item i=there). Then if your data is temporal data , then select the bottom option in the pop-up dialog to be "Pack in Channel". Then when you produce the 3D viewer, you can see the temporal scroll bar, while you are visualizing data in 3D.
-Hanchuan
Originally posted by Crystal Davey:
Hi,
I am having trouble viewing 4D single channel images. I have tried both "packing files in channel dimension" and using the 5D stack converter. My file naming convention is xxxx_z01t01.tif, xxxx_z01t02.tif, etc. In the user guide xxxx_001.tif, xxx_002.tif is suggested. But how do you distinguish z versus t? Does the 1 and 2 in the example correspond to t or z?
Thanks,
Crystal
I am having trouble viewing 4D single channel images. I have tried both "packing files in channel dimension" and using the 5D stack converter. My file naming convention is xxxx_z01t01.tif, xxxx_z01t02.tif, etc. In the user guide xxxx_001.tif, xxx_002.tif is suggested. But how do you distinguish z versus t? Does the 1 and 2 in the example correspond to t or z?
Thanks,
Crystal
Threaded View
| Title | Author | Date |
|---|---|---|
| Crystal Davey | Jan 28, 2013 | |
| Hanchuan Peng | Jan 28, 2013 | |
| Crystal Davey | Jan 28, 2013 | |
| Hanchuan Peng | Jan 28, 2013 | |
| raju bhai | Jul 19, 2016 | |
| Hanchuan Peng | Jul 19, 2016 | |
| raju bhai | Jul 25, 2016 | |
| Alessandro Bria | Jul 25, 2016 | |
| Hanchuan Peng | Jul 25, 2016 | |
