===== SORT3D =====

=== Commands ===
  ; [[pipeline:utilities:sxheader|Import Projection Parameters]] : Import projection parameters from a file to image header.
  ; [[sx3dvariability|3D Variability Preprocess]] : Prepare your symmetric particles for variability calculations.
  ; [[sx3dvariability|3D Variability Estimation]] : Calculate the 3D variability within your reconstruction.   
  ; [[sxsort3d_depth|3D Clustering from Iteration - SORT3D_DEPTH]] : Find 3D clusters within your data set by checking reproducible members using a MERIDIEN iteration.
  ; [[pipeline:utilities:e2bdb|SORT3D_DEPTH Stack Subset]] : Create virtual subset stack consisting from particles belong to a SORT3D_DEPTH cluster.
  ; [[pipeline:meridien:sxmeridien|Local Refinement from Stack]] : Perform local refinement from the stack with user-provided orientation parameters.\\ \\  
  ; [[pipeline:utilities:sxprocess|PostRefiner]] : Combine unfiltered halfset volumes, then enhance the power spectrum.

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=== Alternatives ===
  ; [[sxsort3d_depth|3D Clustering from Stack - SORT3D_DEPTH]] : Find 3D clusters within your data set by checking reproducible members using a stack with user-provided orientation parameters.
  ; [[pipeline:utilities:sxprocess|PostRefiner (single map)]] : Post-refine a single map by enhancing the high frequencies (Single Map Mode)
  ; [[pipeline:meridien:sxmeridien|Final 3D Reconstruction Only]] : Do only final 3D reconstruction using a fully finished 3D refinement iteration.\\ \\

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=== Utilities ===
  ; [[pipeline:utilities:e2display|Display Data]] : Displays images, volumes, or 1D plots.
  ; [[pipeline:utilities:sxpipe_moon_eliminator|Volume Adjustment]] : Resamples, clips, and removes disconnected regions from a 3D map. It optionally creates a mask from the resulting volume.
  ; [[pipeline:viper:sp_mask|Masking]] : Mask creation tool for 2D or 3D masks
  ; [[pipeline:utilities:sxprocess|Angular Distribution]] : Creates a .bild file to display the particle orientation distribution in Chimera.  
  ; [[pipeline:utilities:sp_batch|Batch Pipeline Execution]] : Run jobs that wait with the execution on each other