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Manpage of multiTiltMask
multiTiltMask
Section: User Commands (1)
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NAME
multiTiltMask  generate a Fourier domain mask for multiple tilt axes
SYNOPSIS
multiTiltMask csvFile szMask maskFile
multiTiltMask csvFile szMask maskFile edgeShift
DESCRIPTION
Generate a binary mask with 0's and 1's indicating missing and valid data
locations, respectively, in Fourier space for a tomogram reconstructed
from multiple tilt series whose tilt axes all pass through the
origin. The resulting binary mask will be stored as an MRC file
containing unsigned bytes. While multiTiltMask can be used to generate
masks for single tilt axis tomograms, it is particularly useful for the
multiaxis case.
NOTE: for dual axis tomograms reconstructed with IMOD, see program
dualAxisMask which will automatically extract the appropriate parameters
from the reconstruction directory and run multiTiltMask with them.
 csvFile

The name of the input csv file specifying the tilt axes orientations and
tilt ranges. Each line in this file corresponds to a tilt series, and must
contain 5 values separated by commas. The first 3 values are Slicer (ZYX)
angles in degrees, listed in the order (X,Y,Z), specifying the rotation to
be applied to Y ([0,1,0]') to define the tilt axis for this series. Similarly,
the last 2 values on each line are the min and max tilts for that series.
 szMask

The desired size of the 3D mask in voxels. This should be a single, even
integer, since the resulting mask with always be cubical.
 maskFile

The name of the output MRC file which will containing the binary mask.
 edgeShift

(OPTIONAL, default = 0) The number of voxels to shift the mask boundary
perpendicular to the bounding planes to ensure that all useful frequency
information is included.
AUTHOR
John Heumann
SEE ALSO
PEET(1), alignSubset(1), averageAll(1), and dualAxisMask(1)
Index
 NAME

 SYNOPSIS

 DESCRIPTION

 AUTHOR

 SEE ALSO

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