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If you have blue marked points that are clearly (means that they are not a half pixel wide) visible, then you could actually do the following

  • Take the blue channel from your RGB image
  • Normalize the blue colour channel for the other colours
  • Look for local maxima (using some threshold region) in that image, it will be points with high blue components
  • Create a binary mask for those maxima found
  • Assign contours to those regions
  • Calculate center points for those regions
  • Save the center points to a txt file or something else that is desired.