Modules:CropVolume-Documentation-3.6 - Revision history

Fedorov: /* Quick Tour of Features and Use */

2011-02-06T20:30:14Z

Quick Tour of Features and Use

Fedorov at 20:39, 19 May 2010

2010-05-19T20:39:38Z

Fedorov: /* Quick Tour of Features and Use */

2010-05-14T15:34:52Z

Quick Tour of Features and Use

Fedorov: /* Quick Tour of Features and Use */

2010-05-03T17:30:20Z

Quick Tour of Features and Use

Fedorov: /* Tutorials */

2010-04-28T17:20:07Z

Tutorials

Fedorov: /* Subvolume extraction with ROI widget */

2010-04-26T14:34:01Z

Subvolume extraction with ROI widget

Fedorov: /* Module Description */

2010-04-26T14:07:41Z

Module Description

Fedorov: /* Module Description */

2010-04-26T13:58:52Z

Module Description

Fedorov: /* Module Description */

2010-04-26T13:58:40Z

Module Description

Fedorov: /* Module Description */

2010-04-26T13:58:26Z

Module Description

@@ Line 66: / Line 66: @@
 * '''Viewing panel:''' Size and location of the ROI can be modified using one of the two methods. First, this can be done in 3D View by moving the colored handles of the ROI widget. Second, the ROI can be adjusted in the slice views. ''Right mouse button click'' adjusts the bounds of the ROI. ''Left mouse button click'' moves the center of ROI to be the point where the click was made.
+|
@@ Line 102: / Line 99: @@
 |[[Image:ExtractSubvolumeROI_ROI_transformed.jpg|thumb|200px|Same ROI node is under a transform]]
 |}
 == Development ==

← Older revision		Revision as of 20:39, 19 May 2010
Line 66:		Line 66:
	* '''Viewing panel:''' Size and location of the ROI can be modified using one of the two methods. First, this can be done in 3D View by moving the colored handles of the ROI widget. Second, the ROI can be adjusted in the slice views. ''Right mouse button click'' adjusts the bounds of the ROI. ''Left mouse button click'' moves the center of ROI to be the point where the click was made.		* '''Viewing panel:''' Size and location of the ROI can be modified using one of the two methods. First, this can be done in 3D View by moving the colored handles of the ROI widget. Second, the ROI can be adjusted in the slice views. ''Right mouse button click'' adjusts the bounds of the ROI. ''Left mouse button click'' moves the center of ROI to be the point where the click was made.

		+
		+
		+	Upon completion of the resampling operation, the input volume is set as the Background image volume, and the extracted resampled ROI is set as the Foreground image.
		+
		+	\|
		+	{\|
		+	\|
		+	[[Image:ExtractSubvolumeROI_input_spacing.jpg\|thumb\|200px\|Input image]]
		+
		+	\|[[Image:ExtractSubvolumeROI_output_spacing.jpg\|thumb\|200px\|Cropped subvolume with scaling constant 0.5 -- note the difference in the image spacing]]
		+	\|}
		+
		+	{\|
		+	\|[[Image:ExtractSubvolumeROI_controls.jpg\|thumb\|250px\|CropVolume control panel]]
		+
		+	\|[[Image:ExtractSubvolumeROI_resize.jpg\|thumb\|200px\|Intersection of the ROI with the slice is shown in semi-transparent blue]]
		+	\|}
		+
		+	\|}


Line 85:		Line 104:


−	~~Upon completion of the resampling operation, the input volume is set as the Background image volume, and the extracted resampled ROI is set as the Foreground image.~~
−
−	\|
−	{\|
−	\|
−	~~[[Image:ExtractSubvolumeROI_input_spacing.jpg\|thumb\|200px\|Input image]]~~
−
−	~~\|[[Image:ExtractSubvolumeROI_output_spacing.jpg\|thumb\|200px\|Cropped subvolume with scaling constant 0.5 -- note the difference in the image spacing]]~~
−	\|}
−
−	{\|
−	~~\|[[Image:ExtractSubvolumeROI_controls.jpg\|thumb\|250px\|CropVolume control panel]]~~
−
−	~~\|[[Image:ExtractSubvolumeROI_resize.jpg\|thumb\|200px\|Intersection of the ROI with the slice is shown in semi-transparent blue]]~~
−	\|}
−
−	\|}

	== Development ==		== Development ==

@@ Line 66: / Line 66: @@
 * '''Viewing panel:''' Size and location of the ROI can be modified using one of the two methods. First, this can be done in 3D View by moving the colored handles of the ROI widget. Second, the ROI can be adjusted in the slice views. ''Right mouse button click'' adjusts the bounds of the ROI. ''Left mouse button click'' moves the center of ROI to be the point where the click was made.
 * The input volume and input ROI are both allowed to be under linear transform. This allows to extract a parallelepiped shaped ROI, which is arbitrarily oriented within the input volume using these steps:
 # Create a new Transform in the MRML Tree ([[Modules:Data-Documentation-3.6|Data module]]), or in the [[Modules:Transforms-Documentation-3.6|Transforms module]]
-# Drag the input ROI node under the created transform in the MRML tree ([[Modules:Data-Documentation-3.6|Data module]])
+# Check the ROI selector in the CropVolume module, note the name, and ''drag the ROI node'' under the created transform in the MRML tree ([[Modules:Data-Documentation-3.6|Data module]])
 # Adjust the rotation of the ROI from the [[Modules:Transforms-Documentation-3.6|Transforms module]]
 # Return to CropVolume, use the ROI from above to extract the subvolume
 Upon completion of the resampling operation, the input volume is set as the Background image volume, and the extracted resampled ROI is set as the Foreground image.

@@ Line 48: / Line 48: @@
 {|
+|
 * '''Input/initialization parameters panel:'''

@@ Line 38: / Line 38: @@
 ===Tutorials===
-CropVolume (at the time, ExtractSubvolumeROI) is used in the following tutorial: [http://wiki.na-mic.org/Wiki/index.php/AHM_2010_Tutorial_Contest_-_CoronaryArteriesCenterlinesVMTK Centerline Extraction of Coronary Arteries in 3D Slicer using VMTK based Tools] (winner of the SLC AHM 2010 tutorial contest). Follow the link for the tutorial slides and test data.
+CropVolume (at the time, ExtractSubvolumeROI) is used in the following tutorials:
 ===Quick Tour of Features and Use===

@@ Line 2: / Line 2: @@
 __NOTOC__
 ===Subvolume extraction with ROI widget===
-ExtractSubvolumeROI
+CropVolume
 {|

@@ Line 27: / Line 27: @@
 This module allows to extract rectangular subvolume from a ''scalar'' image, with the subvolume defined by Slicer ROI widget.
-You cannot use this module to crop a DTI volume.
+You cannot use this module to crop a DTI or DWI volume.
 == Usage ==

@@ Line 25: / Line 25: @@
 ===Module Description===
-This module allows to extract rectangular subvolume from ''scalar'' image, with the subvolume defined by Slicer ROI widget.
+This module allows to extract rectangular subvolume from a ''scalar'' image, with the subvolume defined by Slicer ROI widget.
 You cannot use this module to crop a DTI volume.