I have this input image and I wan to find pixel maxima and it should look like image2. I tried contouring but its not working.I also tried scipy pixel_maxima it doesn't gives me result as image2. here is the code, I have refered this answer (Get coordinates of local maxima in 2D array above certain value)
import numpy as np
import scipy.misc
import scipy.ndimage as ndimage
import scipy.ndimage.filters as filters
import matplotlib.pyplot as plt
import imageio
from skimage.color import rgb2gray
fname = 'slice-0001-trim.jpg'
neighborhood_size = 10
threshold = 12
data = imageio.imread(fname,as_gray=True)
data_max = filters.maximum_filter(data, neighborhood_size)
maxima = (data == data_max)
data_min = filters.minimum_filter(data, neighborhood_size)
diff = ((data_max - data_min) > threshold)
maxima[diff == 0] = 0
labeled, num_objects = ndimage.label(maxima)
slices = ndimage.find_objects(labeled)
x, y = [], []
for dy,dx in slices:
x_center = (dx.start + dx.stop - 1)/2
x.append(x_center)
y_center = (dy.start + dy.stop - 1)/2
y.append(y_center)
plt.imshow(data)
plt.savefig('sample.jpg', bbox_inches = 'tight')
plt.autoscale(False)
plt.plot(x,y, 'ro')
plt.savefig('result.png', bbox_inches = 'tight')
I need this image as result
But, I get this image as output
