Doxygen Source Code Documentation

GetAfniSliceTriplet.m File Reference


Functions
Sagittal and Coronal slice indices to	show (a la AFNI, first slice is indexed 0)%for examle[45 12 3] retrieves Axial slice 45
turn Brick into a matrix if it isn t already	if (ndims(Brik)< 3)
end	if (~isfield(Opt, 'index')\|isempty(Opt.index))
end	for (ip=1:1:3)
end	if (Opt.iSlc(ip) > 0)
end	if (DM(ip).zflip)
end grab the slices switch	DM (ip).SliceDim
end grab the slices switch	slc (ip).M = permute(Brik(:, Opt.iSlc(ip)+1, :, Opt.index+1), [1 3 2])
Variables
	function [err, slc]
Sagittal and Coronal slice indices to Sagittal slice and Coronal slice if you need just one	slice
Debug Flag	DBG = 1
initailize return variables	err = 1
turn Brick into a matrix if it isn t already	Brik
end Opt	index = 0
end grab the slices switch	case
	return

Function Documentation

end grab the slices switch DM

(

)

end for ( ip = 1:1:3 )

end if

(

DM(ip).

lrflip

)

end if	(	Opt.	iSlc(ip),
		0
	)

end if

(

isfield(Opt, 'index')|isempty(Opt.index)

)

turn Brick into a matrix if it isn t already if

(

)

Sagittal and Coronal slice indices to show	(	a la	AFNI,
		first slice is indexed	0
	)

slc

(

)

= permute(Brik(:, Opt.iSlc(ip)+1, :, Opt.index+1), [1 3 2])

Variable Documentation

turn Brick into a matrix if it isn t already Brik

Initial value:

 reshape(Brik, BrikInfo.DATASET_DIMENSIONS(1), BrikInfo.DATASET_DIMENSIONS(2),...
                                                BrikInfo.DATASET_DIMENSIONS(3), BrikInfo.DATASET_RANK(2))

Definition at line 56 of file GetAfniSliceTriplet.m.

end grab the slices switch case

Definition at line 74 of file GetAfniSliceTriplet.m.

Debug Flag DBG = 1

Definition at line 49 of file GetAfniSliceTriplet.m.

end end plane err = 1

Definition at line 92 of file GetAfniSliceTriplet.m.

function[err, slc]

Initial value:

 GetAfniSliceTriplet (Brik, BrikInfo, DM, Opt)
%
%   [err, slc] = GetAfniSliceTriplet (Brik, BrikInfo, DM, Opt)
%
%Purpose:
%   Get the slices to display as they appear in the AFNI window
%   
%   
%Input Parameters:
%   Brik: is a vector or a matrix containing the brik values
%   BrikInfo is a structure containing Header info
%      (both are output by BrikLoad function)
%
%   DM is the output of function AFNI_SliceDispManip
%
%   Opt is a an options structure with the following fields
%    .iSlc is an 1x3 vector with the Axial

Definition at line 1 of file GetAfniSliceTriplet.m.

end Opt index = 0

Definition at line 61 of file GetAfniSliceTriplet.m.

return

Definition at line 93 of file GetAfniSliceTriplet.m.

Sagittal and Coronal slice indices to Sagittal slice and Coronal slice if you need just one slice

Definition at line 19 of file GetAfniSliceTriplet.m.

Referenced by ART_send_volume(), colormap_median_cut(), r_fill_resampled_data_brick(), segment_x_slices(), segment_y_slices(), and segment_z_slices().

AFNI/NIfTI Server

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