Appion

h1. Average tomogram subvolumes

Subvolume averaging implemented here aligns the 3D subvolumes using

# The 2D alignment of the particles picked from the Z-projection of the full tomogram for xy plane alignment

# Center of mass of the central slice of each subvolume in z direction.

h2. General Workflow:

# Particles need to be picked on the Z-projection images,

# A [[Stacks|stack made]] from these picked particles

# The stack need to be [[Particle_Alignment|align and classified]] in 2D

# [[Select 2D Classes]] to [[Create Substack|create a substack]]

# [[Create tomogram subvolume]] using the substack so that the alignment parameters are linked.

# Select "Average subvolumes" in Appion sidebar under Tomography submenu.

# Choose the substack

# Enter runname (The directory where it is saved is automatically determined now)

h2. Notes, Comments, and Suggestions:

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[[Create tomogram subvolume|< Create Tomogram Subvolumes]]

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