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Source  : 333009e
Branch  : main
Author  : Toby Hodges <tobyhodges@carpentries.org>
Time    : 2023-12-08 15:08:20 +0000
Message : Merge pull request #313 from bear-rsg/blurring-suggestions

Blurring correction

Author: actions-user

06-blurring.md

@@ -349,22 +349,15 @@ For instance, let's look for the intensities of the pixels along the horizontal
 line at `Y=150`:
 
 ```python
-import imageio.v3 as iio
-import matplotlib.pyplot as plt
-import skimage as ski
-
 # read colonies color image and convert to grayscale
-#
 image = iio.imread('data/colonies-01.tif')
 image_gray = ski.color.rgb2gray(image)
 
 # define the pixels for which we want to view the intensity (profile)
-#
 xmin, xmax = (0, image_gray.shape[1])
-ymin = ymax = 150
+Y = ymin = ymax = 150
 
 # view the image indicating the profile pixels position
-#
 fig, ax = plt.subplots()
 ax.imshow(image_gray, cmap='gray')
 ax.plot([xmin, xmax], [ymin, ymax], color='red')
@@ -379,17 +372,11 @@ alt='Bacteria colony image with selected pixels marker'
 The intensity of those pixels we can see with a simple line plot:
 
 ```python
-# rename our "Y" variables for better reading
-#
-Y = ymin = ymax
-
 # select the vector of pixels along "Y"
-#
 image_gray_pixels_slice = image_gray[Y, :]
 
 # guarantee the intensity values are in the [0:255] range (unsigned integers)
-#
-image_gray_pixels_slice = img_as_ubyte(image_gray_pixels_slice)
+image_gray_pixels_slice = ski.img_as_ubyte(image_gray_pixels_slice)
 
 fig = plt.figure()
 ax = fig.add_subplot()
@@ -410,15 +397,11 @@ And now, how does the same set of pixels look in the corresponding *blurred* ima
 
 ```python
 # first, create a blurred version of (grayscale) image
-#
-import skimage as ski
-
 image_blur = ski.filters.gaussian(image_gray, sigma=3)
 
 # like before, plot the pixels profile along "Y"
-#
 image_blur_pixels_slice = image_blur[Y, :]
-image_blur_pixels_slice = img_as_ubyte(image_blur_pixels_slice)
+image_blur_pixels_slice = ski.img_as_ubyte(image_blur_pixels_slice)
 
 fig = plt.figure()
 ax = fig.add_subplot()

md5sum.txt

@@ -8,7 +8,7 @@
 "episodes/03-skimage-images.md" "063fa4bb5032702c0196b0d953d94474" "site/built/03-skimage-images.md" "2023-12-08"
 "episodes/04-drawing.md" "9d78a765f5e9747ffc2aa43a4a5a414d" "site/built/04-drawing.md" "2023-09-05"
 "episodes/05-creating-histograms.md" "bdcf983127c242eb995605038598d09f" "site/built/05-creating-histograms.md" "2023-09-18"
-"episodes/06-blurring.md" "008ba23277efaed038691178e99c135b" "site/built/06-blurring.md" "2023-09-05"
+"episodes/06-blurring.md" "8d109bb4c49f27f54857f6d35b4c6b9a" "site/built/06-blurring.md" "2023-12-08"
 "episodes/07-thresholding.md" "7ae5260f90e1df8e20a6226cce8ec6b6" "site/built/07-thresholding.md" "2023-09-05"
 "episodes/08-connected-components.md" "59d42797208c5bf569da2fa2e4dd05df" "site/built/08-connected-components.md" "2023-09-09"
 "episodes/09-challenges.md" "a3ace24af8f5cb0bda1e9379a688ad4c" "site/built/09-challenges.md" "2023-09-05"