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eyes:logics:massalignment [2017/06/12 16:51]
vzinch
eyes:logics:massalignment [2017/06/12 18:36] (current)
jschlie1
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 ====== MassAlignment ====== ====== MassAlignment ======
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 This logic shifts image data according to its center of mass. This is required to optimize the images in case the particles are off-centered. This logic shifts image data according to its center of mass. This is required to optimize the images in case the particles are off-centered.
  
 ===== Usage ===== ===== Usage =====
-FIXME+The optimal Pixel threshold value depends on the noisiness of the data: for good images it can be kept at 0 level. The optimal values for Circular mask fraction are 0.8-0.9. This logic only requires one input: a stack of images, which are output after mass centering.
  
- +===== Parameters ​=====
-===== Process ​=====+
  
 |< 100% 30% >| |< 100% 30% >|
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 | Pixel threshold ​ | Pixels lower than this value are not used for alignment ​ | | Pixel threshold ​ | Pixels lower than this value are not used for alignment ​ |
 | Circular mask fraction ​  | Sets the fraction of the circular mask used during normalization | | Circular mask fraction ​  | Sets the fraction of the circular mask used during normalization |
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-|< 100% 30% >| 
-^ Input   ^ Description ^ 
-| Input  | A stack of images | 
-| Input  (optional) | Not used | 
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-|< 100% 30% >| 
-^ Output ​  ^ Description ^ 
-| Output | A stack of mass aligned images ​ | 
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-===== Concept ===== 
-The logic uses the pixel values above the given threshold as a mass and shifts the mass center of every image to its geometric center. ​