Conversion from DICOM - Revision history

Chris: /* Running to3d */

2021-06-24T19:46:17Z

Running to3d

← Older revision		Revision as of 15:46, 24 June 2021
Line 40:		Line 40:
	The to3d command will try to launch a GUI window unless you provide an output file name as a file prefix. We generally want to convert our data to .nii (or .nii.gz) files:		The to3d command will try to launch a GUI window unless you provide an output file name as a file prefix. We generally want to convert our data to .nii (or .nii.gz) files:
	to3d <span style="color:red;">-prefix T1.nii</span> file*.dcm		to3d <span style="color:red;">-prefix T1.nii</span> file*.dcm
	After this executes, you will have a new .nii file in your working directory.		After this executes, you will have a new .nii file in your working directory. Of course, the file prefix you choose will depend entirely on the meaning of the data. T1.nii might be an appropriate name for T1-weighted anatomical data. FLAIR.nii would be a better name for data from a FLAIR image.

Chris: /* Running to3d */

2021-06-24T19:44:47Z

Running to3d

← Older revision		Revision as of 15:44, 24 June 2021
Line 39:		Line 39:
	==Running to3d==		==Running to3d==
	The to3d command will try to launch a GUI window unless you provide an output file name as a file prefix. We generally want to convert our data to .nii (or .nii.gz) files:		The to3d command will try to launch a GUI window unless you provide an output file name as a file prefix. We generally want to convert our data to .nii (or .nii.gz) files:
	to3d -prefix T1.nii file*.dcm		to3d <span style="color:red;">-prefix T1.nii</span> file*.dcm
	After this executes, you will have a new .nii file in your working directory.		After this executes, you will have a new .nii file in your working directory.

Chris: /* to3d */

2021-06-24T19:41:42Z

to3d

@@ Line 1: / Line 1: @@
 MRI Scanners generate and save data to a native file type. These files may be proprietary, but can be converted to standard .nii files using a conversion utility.
-==to3d==
+=to3d=
-This is an AFNI utility.
+This is an AFNI utility that converts a series of 2D DICOM or similar files, assuming sequential filenames, to a 3D file type.
-It takes a series of DICOM or similar files, assuming sequential filenames, and will convert to another 3D file type.
+==Preparation==

Chris: Created page with "MRI Scanners generate and save data to a native file type. These files may be proprietary, but can be converted to standard .nii files using a conversion utility. ==to3d== Thi..."

2021-06-24T18:00:45Z

Created page with "MRI Scanners generate and save data to a native file type. These files may be proprietary, but can be converted to standard .nii files using a conversion utility. ==to3d== Thi..."

New page

MRI Scanners generate and save data to a native file type. These files may be proprietary, but can be converted to standard .nii files using a conversion utility.
==to3d==
This is an AFNI utility.
It takes a series of DICOM or similar files, assuming sequential filenames, and will convert to another 3D file type.