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Lab Report

Lab Report. Tubercle Bacilli Reference Experiment 陳玉書. Outline. Reference 0. Automatic identification techniques of tuberculosis bacteria (2003) 1. Automated Identification of Tubercle Bacilli in Sputum A Preliminary Investigation (1999)

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Lab Report

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  1. Lab Report Tubercle Bacilli Reference Experiment 陳玉書

  2. Outline • Reference • 0. Automatic identification techniques of tuberculosis bacteria (2003) • 1. Automated Identification of Tubercle Bacilli in Sputum A Preliminary Investigation (1999) • 2. The automatic identification of tubercle bacilli using image processing and neural computing techniques (1998) • 3. Image processing and neural computing used in the diagnosis of tuberculosis (1998) • 4. Identification of tuberculosis bacteria based on shape and color (2004)

  3. Outline • Experiment • ImageJ • Segmentation

  4. Reference • Keyword • Automatic • Tubercle bacilli • Identification • Sputum • Tuberculosis bacteria (bacterium) • 桿菌 • 肺結核 • 辨視

  5. Reference Automatic identification techniques of tuberculosis bacteria (2003)

  6. Reference-Automatic identification techniques of tuberculosis bacteria (2003) • Method

  7. Reference-Automatic identification techniques of tuberculosis bacteria (2003) • Original image • Edge detection • Closing • Filling of closed regions • Opening • Color segmented image

  8. Reference-Automatic identification techniques of tuberculosis bacteria (2003) • Original image • Edge detection • Closing • Filling of closed regions • Opening • Color segmented image

  9. Reference-Automatic identification techniques of tuberculosis bacteria (2003) • Original image • Edge detection • Closing • Filling of closed regions • Opening • Color segmented image

  10. Reference-Automatic identification techniques of tuberculosis bacteria (2003) • Bacilli characterization • Area • Compactness • Major axis length • Minor axis length • Eccentricity • Perimeter • solidity

  11. Reference-Automatic identification techniques of tuberculosis bacteria (2003)

  12. Reference-Automatic identification techniques of tuberculosis bacteria (2003) • 非桿菌，影響辨視TB的其他細胞

  13. Reference-Automatic identification techniques of tuberculosis bacteria (2003) • 緊湊度（Compactness）：值會介於0~1間。同面積大小的圓周長除上原物體的周長，若物體恰為圓形則緊湊度指標為1。 • 離心率（Eccentricity）：此參數與比例大小及方向無關，只與形狀有關。離心率為兩焦點間的距離與長軸的比值。值會介於0 ~ 1之間，圓為橢圓的特例，兩焦點的距離為零，所以圓的離心率為0，越是呈線狀的物體其離心率則越接近1 • Hu’s moment ??

  14. Reference-Automatic identification techniques of tuberculosis bacteria (2003) • silhouette coefficient 由Kaufman與Rousseeuw (1987)提出，用以衡量分群結果的好壞，其概念則以衡量各點之間(分群內、群間)相似度，以決定整體分群結果優劣

  15. Reference-Automatic identification techniques of tuberculosis bacteria (2003)

  16. Reference-Automatic identification techniques of tuberculosis bacteria (2003)

  17. Reference Identification of tuberculosis bacteria based on shape and color (2004)

  18. Reference-Identification of tuberculosis bacteria based on shape and color(2004)

  19. Reference-Identification of tuberculosis bacteria based on shape and color(2004) • Autofocus algorithms • Gray Level • Laplacian(邊緣偵測) • Wavelet-based(小波) • autocorrelation

  20. Reference-Identification of tuberculosis bacteria based on shape and color(2004)

  21. Reference-Identification of tuberculosis bacteria based on shape and color(2004)

  22. Reference-Identification of tuberculosis bacteria based on shape and color(2004) • Automatic identification method • Color range (green and yellow up to white) • Length : 1-10 µm • Width : 0.2~0.6 µm • Shape : straight, curved or bent

  23. Reference-Identification of tuberculosis bacteria based on shape and color(2004) • Original image • Edge detection • Closing • Filling of closed regions • Opening • Color segmented image

  24. Reference-Identification of tuberculosis bacteria based on shape and color(2004) • Original image • Edge detection • Closing • Filling of closed regions • Opening • Color segmented image

  25. Reference-Identification of tuberculosis bacteria based on shape and color(2004) • Adaptive color thresholding (適應性色彩調整值) G R B

  26. Reference-Identification of tuberculosis bacteria based on shape and color(2004) • 緊湊度（Compactness）：值會介於0~1間。同面積大小的圓周長除上原物體的周長，若物體恰為圓形則緊湊度指標為1。 • 離心率（Eccentricity）：此參數與比例大小及方向無關，只與形狀有關。離心率為兩焦點間的距離與長軸的比值。值會介於0 ~ 1之間，圓為橢圓的特例，兩焦點的距離為零，所以圓的離心率為0，越是呈線狀的物體其離心率則越接近1 • Hu’s moments ??

  27. Reference-Identification of tuberculosis bacteria based on shape and color(2004)

  28. Reference-Identification of tuberculosis bacteria based on shape and color(2004)

  29. Reference-Identification of tuberculosis bacteria based on shape and color(2004)

  30. Reference-Identification of tuberculosis bacteria based on shape and color(2004)

  31. Reference-Identification of tuberculosis bacteria based on shape and color(2004)

  32. Reference-Identification of tuberculosis bacteria based on shape and color(2004) • Sensitivity 陽性(P(T+|D+)) • Specificity 陰性(P(T-|D-)) 陽性 (診斷感染) 偽陰性 1-SN P(T-|D+) 陰性 (診斷未感染) 偽陽性 1-SP P(T+|D-)

  33. Reference-Identification of tuberculosis bacteria based on shape and color(2004)

  34. Reference-Identification of tuberculosis bacteria based on shape and color(2004) • ROC曲線 • 1973年，Simpson及Fitter提出以「ROC曲線下的面積」做為診斷工具分辨能力的指標 • 1975年，Bamber指出「ROC曲線下的面積」的意義。他認為這個面積（大於0，小於1的一個數字）代表「強迫二選一」的情形下，診斷工具猜對有病者、無病者的機率。 • 在臨床實務上，幾乎不可能找到百分之百「正確」的診斷工具。因此，「陽性預測值」、「陰性預測值」、「敏感度」、「精確度」、「概算比」等概念紛紛被提出來。醫師較喜 歡使用「陽性預測值」（或「陰性預測值」），因為這項指標是以具有某種檢驗結果的人數做為分母，以真實健康狀態與檢驗結果相符的人數做為分子。醫師如果知 道某檢驗的陽性預測值是90﹪，他就可以告訴一個檢驗結果為陽性的人說：「你有90﹪的機會得了某病。」 ….. http://www.geocities.com/shinyuanclub/update97/lucm0115.html

  35. Experiment Segmentation

  36. Experiment-Segmentation 6187-3 6187-2 6187-1 IMAG6187

  37. Experiment Image processing

  38. Experiment-Image processing 6187-1 6187-2 6187-3 Binary Edge

  39. Experiment-Image processing 6187-1 6187-2 6187-3 留紅處理 Edge

  40. Experiment-Segmentation 6202-2 6187-2 6202-1 IMAG6202

  41. Experiment-Segmentation 6202-1 6202-2 Binary

  42. Experiment-Segmentation 6202-1 6202-1-2 Binary Edge 留紅處理

  43. Experiment-Segmentation 6202-2 Binary 留紅處理 Edge

  44. To be continue…

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