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pipeline:utilities:sp_center_2d3d

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pipeline:utilities:sp_center_2d3d [2022/03/01 15:12]
shaikh [Output]
pipeline:utilities:sp_center_2d3d [2022/03/01 15:13] (current)
shaikh old revision restored (2021/02/18 16:24)
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   ; output_directory : Directory where outputs will be written. (default required string)   ; output_directory : Directory where outputs will be written. (default required string)
   ; %%--%%mode : Centering mode: acf, rt180, boundingbox, or blob. (default acf)   ; %%--%%mode : Centering mode: acf, rt180, boundingbox, or blob. (default acf)
-  ; %%--%%threshsigma : Binarization threshold in 2D acf mode, in units of standard deviation. (default 0.0)+  ; %%--%%threshsigma : Binarization threshold in 2D acf mode, in units of standard deviation. (default 1.0)
   ; %%--%%applyshift : In 3D acf or boundingbox mode, volume to which shifts will be applied. (default None)   ; %%--%%applyshift : In 3D acf or boundingbox mode, volume to which shifts will be applied. (default None)
   ; %%--%%volradius : In blob mode, radius of the Gaussian blob, in voxels, to which the input map will be aligned. (default None)   ; %%--%%volradius : In blob mode, radius of the Gaussian blob, in voxels, to which the input map will be aligned. (default None)
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 \\ \\
 ===== Output ===== ===== Output =====
 +  ; stkmask_centered.hdf : In 2D acf mode, binarized images after centering
 +  ; stkavgs_centered.hdf : In 2D acf mode, input images after centering
 +  ; stkcompare.hdf : In 2D acf mode, montage of mask, centered image, and masked image
 +  ; stkcentered_rt180.hdf : In rt180 mode, input images after centering
 +  ; vol_acf_centered.hdf : In 3D acf mode, volume of interest after centering
 +  ; vol_blob_centered.hdf : In blob mode, volume of interest after centering
 +  ; vol_box_centered.hdf : In boundingbox mode, volume of interest after centering
 +  ; docshifts.txt : Shift parameters. Inputs will not be rotated.
  
-; ; stkmask_centered.hdf : : In 2D acf mode, binarized images after centering ; ; stkavgs_centered.hdf : : In 2D acf mode, input images after centering ; ; stkcompare.hdf : : In 2D acf mode, montage of mask, centered image, and masked image ; ; stkcentered_rt180.hdf : : In rt180 mode, input images after centering ; ; vol_acf_centered.hdf : : In 3D acf mode, volume of interest after centering ; ; vol_blob_centered.hdf : : In blob mode, volume of interest after centering ; ; vol_box_centered.hdf : : In boundingbox mode, volume of interest after centering ; ; docshifts.txt : : Shift parameters. Inputs will not be rotated. +\\
  
 ===== Description ===== ===== Description =====
pipeline/utilities/sp_center_2d3d.txt · Last modified: 2022/03/01 15:13 by shaikh