Appion Processing » History » Revision 38
Revision 37 (Anke Mulder, 06/14/2010 12:16 PM) → Revision 38/69 (Anke Mulder, 06/14/2010 12:20 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]] !http://emg.nysbc.org/attachments/282/Picture_83.png! !http://emg.nysbc.org/attachments/277/Picture_81.png! ______ [[Appion and Leginon Database Tools|< Appion and Leginon Database Tools]] ______