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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, | ; %%--%%mode : Centering mode: acf, rt180, boundingbox, | ||
- | ; %%--%%threshsigma : Binarization threshold in 2D acf mode, in units of standard deviation. (default | + | ; %%--%%threshsigma : Binarization threshold in 2D acf mode, in units of standard deviation. (default |
; %%--%%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 ===== |