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Appion Processing » History » Revision 37

Revision 36 (Anke Mulder, 06/14/2010 12:15 PM) → Revision 37/69 (Anke Mulder, 06/14/2010 12:16 PM)

h1. Appion Processing 

 ## [[Terminology]] 
 ## [[Common Workflow]] 
 ### [[Step by Step Guide]] 
 ### [[Quality Assessment]] 
 ## [[Processing Cluster Login]] 
 ## [[Particle Selection]]  
 ### [[Template Picking]] 
 ### [[Dog Picking]] 
 ### [[Manual Picking]]  
 ### [[Repeat from other session]] 
 ### [[Random Conical Tilt Picking]] 
 **** [[Align and Edit Tilt Pairs]] 
 **** [[Auto Align Tilt Pairs]] 
 ## [[CTF Estimation]]  
 ### [[Ace Estimation]] 
 ### [[Ace 2 Estimation]] 
 ### [[CtfFind Estimation]] 
 ### [[Repeat from other session]] 
 ## [[Stacks]]  
 ### [[Stack creation]] 
 ### [[more stack tools]] 
 #### [[Combine Stacks]] 
 #### [[View Stacks]]  
 ***** [[Filter by MeanSTDev]] 
 ***** [[Center Particles]] 
 ***** [[Sort Junk]] 
 ***** [[Create Substack]] 
 #### [[Alignment SubStacks]] 
 #### [[ Jumpers SubStack]] 
 #### [[Convert Stack into Particle Picks]] 
 ## [[Particle Alignment]]  
 ### [[Run Alignment]] 
 **** [[Xmipp Maximum Likelihood Alignment]] 
 **** [[Spider Reference-free Alignment]] 
 **** [[Spider Reference-based Alignment]] 
 **** [[Ed's Iteration Alignment]] 
 **** [[Xmipp Reference-based Maximum Likelihood Alignment]] 
 ### [[Run Feature Analysis]] 
 **** [[Spider Coran Classification]] 
 **** [[Xmipp Kerden Self-Organizing Map]] 
 **** [[Xmipp Rotational Kerden Self-Organizing Map]] 
 ### [[Run Particle Clustering]] 
 ## [[Ab Initio Reconstruction]] 
 ### [[RCT Volume]]  
 ### [[OTR Volume]]  
 ### [[EMAN Common Lines]]  
 ### [[IMAGIC Angular Reconstitution]]  
 ## [[Refine Reconstruction]]  
 ### [[EMAN Refinement]] 
 ### [[Frealign Refinement]] 
 ### [[SPIDER Refinement]] 
 ### [[IMAGIC Refinement]] 
 ## [[Tomography]] 
 ### [[Align tilt series]] 
 ### [[Create full tomogram]] 
 ### [[Upload tomogram]] 
 ### [[Create tomogram subvolume]] 
 ### [[Average subvolumes]] 
 ## [[Import Tools]]  
 ### [[PDB to Model]] 
 ### [[EMDB to Model]] 
 ### [[Upload Particles]] 
 ### [[Upload Template]] 
 ### [[Upload Model]] 
 ### [[Upload More Images]] 
 ### [[Upload Stack]] 
 ## [[Image Assessment]]  
 ### [[Web Img Assessment]] 
 ### [[Multi Img Assessment]] 
 ### [[Run Image Rejector]] 
 ## [[Region Mask Creation]] 
 ### [[Manual Masking]]  
 ## [[Synthetic Data]]  
 ### [[Synthetic Dataset Creation]] 

 ## [[test page]] 

 


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 [[Appion and Leginon Database Tools|< Appion and Leginon Database Tools]] 

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