Questions tagged [scipy.ndimage]
50 questions
0
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1 answer
how to implement scipy.ndimage.convolve1d
I have a code on python I like to convert it to c++.
I have a probleme in this line how can I implement it in cpp.
y = scipy.ndimage.convolve1d(x1, x2, mode="constant")
youssef boutaleb
- 3
- 2
0
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0 answers
Implement "SAGA Majority Filter" with ndimage
I am looking for a way to implement that QGIS Filter to smooth agriculture zones within a field. Right now I have many artifacts. I want to smooth and eliminate artifacts smaller than specified number of pixels and instead pick neighboring max.
I…
Patricio Stegmann
- 43
- 6
0
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2 answers
Is there a way to add two filter together as one filter in edge detection?
When I do an edge detection, I normally first use a Gaussian filter:
img_blur = scipy.ndimage.gaussian_filter(img,2,truncate = 2.25)
Then a gradient filter:
Ix= scipy.ndimage.convolve(im, dx)
Iy = scipy.ndimage.convolve(im, dy)
Where dx and dy…
Ziyao Wang
- 3
- 2
0
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1 answer
How to remove CT bed/shadows in a CT image with python?
I am working with 3D CT images and trying to remove the lines from the bed.
A slice from the original Image:
Following is my code to generate the mask:
segmentation = morphology.dilation(image_norm, np.ones((1, 1, 1)))
labels, label_nb =…
Dushi Fdz
- 161
- 3
- 22
0
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0 answers
Sigma parameter for scipy.ndimage.gaussian_filter function I don't understand the concept of axes
I have simple example that is not working as expected
import numpy as np
from PIL import Image
from scipy import ndimage
def gaussian_smoothing(image, sigma = 1):
im = np.array(image)
sim = ndimage.gaussian_filter(im, sigma=sigma)
…
Howisitgoing
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- 2
0
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0 answers
ndimage.rotate for rotating a live video makes it very slow (python)
My objective is to have the webcam transmitting live feed and I could rotate the image feed by some degries (this part would be controlled by the values of a gyroscope). The problem is although the image rotates when using ndimage.rotate by the…
0
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1 answer
Reduce artifacts when resampling a Brain MRI scan using scipy affine_transform
I have a Brain MRI. It is gray scale with 20 slices. I put it into a numpy array with shape (20,256,256). I use scipy.ndimage affine_transform to rotate and resample the array as below.
The dark stipes in the image is the artifact that I want…
John Henckel
- 10,274
- 3
- 79
- 79
0
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1 answer
Scipy Median Filter Which Ignores Zero-Valued Datapoints?
I have been using the median_filter function from scipy.ndimage. I would like to use this in a way that discards any data that isn't positively valued.
That is, suppose one iteration of the filter acts over:
[40, 50, 0, 90]
If I simply run the…
Harry Chittenden
- 95
- 10
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0 answers
How do I find rectangular areas in a matrix
I have a matrix with different labels.
How do I find all rectangles with identical values?
I tried:
import numpy as np
import scipy.ndimage as nd
a= np.zeros((120, 120), dtype=np.uint16)
a[:100, :100] = 5
a[10:100, 10:100] = 6
a[12:100, 12:100] =…
Ruediger Jungbeck
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- 5
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- 59
0
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1 answer
How to grow a labeled feature in an scipy ndimage
Is there a way to grow a labeled feature in an ndimage? Ideally with a way to specify how the growth should happen by using a structure.
I'm using scipy.ndimage.label() for feature detection in an n-dimensional binary image like so:
import numpy as…
nieswand
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- 7
0
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1 answer
How to find coordinate of polygon shape from binary image?
The image is below, where dark area is 0, bright area is 255. I want to find 4 coordinates [(x1, y1),(x2, y2),(x3, y3),(x4, y4)] of bright area from this image. This bright area would be polygon shape (pentagon, hexagon, triangle etc.).
I have…
Md. Rezwanul Haque
- 2,882
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- 45
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1 answer
Librosa ModuleNotFoundError: No module named 'scipy.ndimage'
I am trying to use librosa library but whatever I do I take the following massage (Using Python 3.8 and PyCharm on Anaconda)
What I am trying:
import librosa
import IPython.display as ipd
sr = 22050 # sample rate
T = 5.0 # seconds
t =…
UIAT
- 1
0
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2 answers
Use a custom kernel / image filter to find a specific pattern in a 2d array
Given an image im,
>>> np.random.seed(0)
>>> im = np.random.randint(0, 100, (10,5))
>>> im
array([[44, 47, 64, 67, 67],
[ 9, 83, 21, 36, 87],
[70, 88, 88, 12, 58],
[65, 39, 87, 46, 88],
[81, 37, 25, 77, 72],
[ 9,…
Markus Dutschke
- 9,341
- 4
- 63
- 58
0
votes
1 answer
How to set different stride with uniform filter in scipy?
I am using the following code to run uniform filter on my data:
from scipy.ndimage.filters import uniform_filter
a = np.arange(1000)
b = uniform_filter(a, size=10)
The filter right now semms to work as if a stride was set to size // 2.
How to…
JAV
- 279
- 2
- 9
0
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1 answer
How to get the list of values of scipy.ndimage gaussian_filter?
I'm trying to get a list of values when I use a gaussian_filter.
I read a file with a column and float values. Example:
0.8457
0.0
0.505
etc...
My script is this:
#!/usr/bin/env python
import numpy as np
from scipy.ndimage.filters import…
Hdez
- 151
- 7