help > issues when generate mask from a swc file
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Jul 24, 2019 12:07 PM | XiaoWei Ran
issues when generate mask from a swc file
Hi!
I encounter a problem when I try to generate a mask from a swc file with Vaa3d.
I use the data in BigNeuron. Swc file for some cases in the dataset can't be processed with the sphere model and when I use the cylinder model to deal with these cases, I find that the size of the mask generated is not as same as the original image. I want to know What I can do to match these original images and masks?
Thanks!
I encounter a problem when I try to generate a mask from a swc file with Vaa3d.
I use the data in BigNeuron. Swc file for some cases in the dataset can't be processed with the sphere model and when I use the cylinder model to deal with these cases, I find that the size of the mask generated is not as same as the original image. I want to know What I can do to match these original images and masks?
Thanks!
Aug 5, 2019 03:08 AM | wp kenan
RE: issues when generate mask from a swc file
"I find that the size of the mask generated is not as same as the
original image" Do you mean that the file memory size is different,
or is the image size different?
Aug 6, 2019 10:08 AM | XiaoWei Ran
RE: issues when generate mask from a swc file
It's the shape of the generated mask can't match the shape of the
original image when use cylinder model.
Aug 6, 2019 11:08 AM | XiaoWei Ran
RE: issues when generate mask from a swc file
And these cases will lead to crashing when I use sphere model.
Aug 7, 2019 01:08 AM | wp kenan
RE: issues when generate mask from a swc file
sphere model has not released
Aug 7, 2019 01:08 AM | wp kenan
RE: issues when generate mask from a swc file
Because when making the mask, the minimum value of the signal
coordinates x, y, and z generated by the mask is aligned with the
edge of the swc, so you will see that the signal position is
different and the block size is different, but the signal size is
the same.
If you look closely, you should find that the size of the mask and your swc are the same, but the size of the cube is different.
If you look closely, you should find that the size of the mask and your swc are the same, but the size of the cube is different.
Sep 2, 2019 06:09 PM | wqx15
RE: issues when generate mask from a swc file
I will reset the scale of swc files. It might because the scale in
your original picure(.tiff) and your swc file are not same.
open the neutube software-----tools----swc------edit swc-----resize-----input the scale you want to resize
open the neutube software-----tools----swc------edit swc-----resize-----input the scale you want to resize