Notebooks

• 尝试在乔哥的图片上找到黑白两色的颗粒
  • 1 用Python代码实现TrackMate的LoG方法（非完全复现，没有细节，只有基本思路）。
  • 2 区分黑白颗粒
  • 3 寻找白色颗粒
  • 4 全部流程整合
  • 5 黑色particle重合问题
  • 6 每个颗粒的Trajectory
  • 7 Subpixel accuracy
  • Appendix: attempt to remove background inhomogeneity, no success
• Improve the accuracy and efficiency of the tracking
  • 0 Run original code
    • 0.1 Find bw on the large image
    • 0.2 Plot particle locations
    • 0.3 Take a small area for this test
  • 1 Improve accuracy
    • 1.1 Misclassification of black and white
      • 1.1.1 What’s wrong with mean intensity?
      • 1.1.2 Seek better criteria
        • Standard deviation
        • Other criteria
    • 1.2 White false positive
      • 1.2.1 Mean intensity
  • 2 Improve efficiency
    • 2.1 Which step is slow?
    • 2.2 New find_white
  • 3 Last remark
  • 4 Minimal example
• White particles
  • 1 The old method
  • 2 A closer look at the white particle pixel intensity profiles
    • 2.1 Particles that are found by find_white()
    • 2.2 Particles that are not detected
  • 3 A better mask?
    • 3.1 Try different parameters of Mexican hat
    • 3.2 Gaussian mask
    • 3.3 Double well
  • 4 Try find_black
  • 5 Add more optional args to find_white()
  • 6 Minimal example
• Examples of use