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pipeline:utilities:sp_separate_class

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pipeline:utilities:sp_separate_class [2019/12/11 18:58]
shaikh
pipeline:utilities:sp_separate_class [2019/12/12 09:47]
shaikh
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 The purpose of sp_separate_class.py is to:  The purpose of sp_separate_class.py is to: 
  
-  : extract particle-membership information from a stack of class averages +  : write particle-membership lists for each class 
-  : write particle-membership lists for each class, and +  : write separate stacks for each class, with an option to low-pass filter and/or downsample the images, and 
-  : write separate stacks for each class, with an option to low-pass filter and/or downsample the images+  : optionally compute eigenimages (basis images) for each class
  
 \\ __1. Standard usage: create separate stacks for each class__: \\ __1. Standard usage: create separate stacks for each class__:
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 \\ \\
 ===== Output ===== ===== Output =====
-  ; classmap.txt : Class-to-particle lookup table, one file for all classes[{{ :pipeline:utilities:ave_eig75-84.png?400|For 10 classes (from left to right): average, variance, and 5 eigenimages}}]+  ; classmap.txt : Class-to-particle lookup table, one file for all classes[{{ :pipeline:utilities:ave_eig75-84.png?400|For each class (from left to right): average, variance, and 5 eigenimages}}]
   ; docclass???.txt : List of particles for each class, one file per class   ; docclass???.txt : List of particles for each class, one file per class
   ; params_combined.txt : (Optional) Combined particle alignment parameters   ; params_combined.txt : (Optional) Combined particle alignment parameters
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   ; stkclass_???.bdb : Virtual stacks of unaligned particles for each class   ; stkclass_???.bdb : Virtual stacks of unaligned particles for each class
   ; stkalign_???.bdb : (Optional) Virtual stacks of aligned and optionally filtered particles for each class   ; stkalign_???.bdb : (Optional) Virtual stacks of aligned and optionally filtered particles for each class
 +  ; stkeigen.hdf : (Optional) Montage of average, variance, and eigenimages
    
  
pipeline/utilities/sp_separate_class.txt · Last modified: 2020/01/31 11:38 by shaikh