Difference between revisions of "Registration: Manual 2D Series"
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=== Applying the Manual 2D Series algorithm on 2.5 images === | === Applying the Manual 2D Series algorithm on 2.5 images === | ||
− | <div style="font-style: normal; font-weight: normal; margin-bottom: 6pt; margin-left: 0pt; margin-right: 0pt; margin-top: 0pt; text-align: left; text-decoration: none; text-indent: 0pt; text-transform: none; vertical-align: baseline"><font color="#000000"> To run this algorithm on 2.5D images, complete the following steps:<br /></font></div><div style="font-style: normal; font-weight: normal; margin-bottom: 0pt; margin-left: 18pt; margin-right: 0pt; margin-top: 6pt; text-align: left; text-decoration: none; text-indent: -18pt; text-transform: none; vertical-align: baseline"><font color="#000000"> 1 Open a single 2.5 image dataset. When you apply this algorithm, you select the slices in the dataset that you want to register.<br /></font></div><div style="font-style: normal; font-weight: normal; margin-bottom: 0pt; margin-left: 18pt; margin-right: 0pt; margin-top: 6pt; text-align: left; text-decoration: none; text-indent: -18pt; text-transform: none; vertical-align: baseline"><font color="#000000"> 2 Perform, as an option, any other image processing, except scaling, on the image dataset.<br /></font></div><div style="font-style: normal; font-weight: normal; margin-bottom: 0pt; margin-left: 18pt; margin-right: 0pt; margin-top: 6pt; text-align: left; text-decoration: none; text-indent: -18pt; text-transform: none; vertical-align: baseline"><font color="#000000"> 3 Select Algorithms > Registration > Manual 2D Series. The Manual 2D Series window for 2.5D images ( | + | <div style="font-style: normal; font-weight: normal; margin-bottom: 6pt; margin-left: 0pt; margin-right: 0pt; margin-top: 0pt; text-align: left; text-decoration: none; text-indent: 0pt; text-transform: none; vertical-align: baseline"><font color="#000000"> To run this algorithm on 2.5D images, complete the following steps:<br /></font></div><div style="font-style: normal; font-weight: normal; margin-bottom: 0pt; margin-left: 18pt; margin-right: 0pt; margin-top: 6pt; text-align: left; text-decoration: none; text-indent: -18pt; text-transform: none; vertical-align: baseline"><font color="#000000"> 1 Open a single 2.5 image dataset. When you apply this algorithm, you select the slices in the dataset that you want to register.<br /></font></div><div style="font-style: normal; font-weight: normal; margin-bottom: 0pt; margin-left: 18pt; margin-right: 0pt; margin-top: 6pt; text-align: left; text-decoration: none; text-indent: -18pt; text-transform: none; vertical-align: baseline"><font color="#000000"> 2 Perform, as an option, any other image processing, except scaling, on the image dataset.<br /></font></div><div style="font-style: normal; font-weight: normal; margin-bottom: 0pt; margin-left: 18pt; margin-right: 0pt; margin-top: 6pt; text-align: left; text-decoration: none; text-indent: -18pt; text-transform: none; vertical-align: baseline"><font color="#000000"> 3 Select Algorithms > Registration > Manual 2D Series. The Manual 2D Series window for 2.5D images (see Figure 7]) opens.<br /></font></div><div style="font-style: normal; font-weight: normal; margin-bottom: 0pt; margin-left: 18pt; margin-right: 0pt; margin-top: 6pt; text-align: left; text-decoration: none; text-indent: 0pt; text-transform: none; vertical-align: baseline"><font color="#000000"> Because you are registering slices of an image, and not separate images, all of the necessary icons and controls appear in a simple window that does not include tabbed pages. Note that there are two sliders at the top of the page:<br /></font></div><div style="font-style: normal; font-weight: normal; margin-bottom: 0pt; margin-left: 36pt; margin-right: 0pt; margin-top: 6pt; text-align: left; text-decoration: none; text-indent: -12pt; text-transform: none; vertical-align: baseline"><font color="#000000"> <span style="font-weight: normal; text-decoration: none; text-transform: none; vertical-align: baseline">''<font color="#000000">Reference slice slider</font>''</span>-Allows you to choose which slice to use as a reference image. <br /></font></div><div style="font-style: normal; font-weight: normal; margin-bottom: 0pt; margin-left: 36pt; margin-right: 0pt; margin-top: 6pt; text-align: left; text-decoration: none; text-indent: -12pt; text-transform: none; vertical-align: baseline"><font color="#000000"> <span style="font-weight: normal; text-decoration: none; text-transform: none; vertical-align: baseline">''<font color="#000000">Adjusted slice slider</font>''</span>-Allows you to choose which slice to use as an image to be registered. <br /></font></div><div style="font-style: normal; font-weight: normal; margin-bottom: 0pt; margin-left: 18pt; margin-right: 0pt; margin-top: 6pt; text-align: left; text-decoration: none; text-indent: 0pt; text-transform: none; vertical-align: baseline"><font color="#000000"> The boxes to the right of each slider indicate which slice you are currently viewing. <br /></font></div><div style="font-style: normal; font-weight: normal; margin-bottom: 0pt; margin-left: 18pt; margin-right: 0pt; margin-top: 6pt; text-align: left; text-decoration: none; text-indent: 0pt; text-transform: none; vertical-align: baseline"><font color="#000000"> All of the remaining icons and controls work in the same way that they do on the Manual 2D Series window for 2D images (refer to [RegistrationManual2DSeries.html#1158899 Figure 5] and [RegistrationManual2DSeries.html#1146729 Figure 6]).<br /></font></div><div style="font-style: normal; font-weight: normal; margin-bottom: 0pt; margin-left: 0pt; margin-right: 0pt; margin-top: 0pt; text-align: left; text-decoration: none; text-indent: 0pt; text-transform: none; vertical-align: baseline"><font color="#000000"> |
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Revision as of 15:48, 7 February 2012
Contents
Registration: Manual 2D Series
The algorithm also lets you manually register different slices of a 2.5 image dataset in the same way as the 2D images.
Background
On the Blended page, the window superimposes the image to be registered on top of the reference image. This page includes icons for aligning, rotating, alphablending, and magnifying or minifying the images as well as icons for modifying the lookup table for each image and for applying a checkerboard pattern to assist in alignment.
Clicking the Dual tab opens the Dual page, which displays the images side by side. A number of icons appear in the toolbar. The red icons are color coded to the reference image, which appears on the left and is surrounded by a red border. The green icons apply to the image to be registered, which is shown on the right side of the page and is surrounded by a green border.
Before being able to use either the Thin Plate Spline or Least Squares algorithm, you must first delineate a minimum of three corresponding points on both images. These points serve as guides, or landmarks, for aligning the images. In order for the points to be corresponding, you should delineate each point in the same sequence; i.e., the first point that you delineate on the reference image should be the first point delineated on the image to be registered, the second point on the reference image should be the second point delineated on the image to be registered, and so on.
To delete a point, you must first select the point and then use the appropriate Delete icon to delete it. However, before you can select the point, you need to return the cursor to its default mode using the icon.
On both the Blended and Dual pages, you can modify the lookup table (LUT) by clicking , the LUT icon. When you select , the Lookup Table window appears. This window includes two tabbed pages: one for Image A, the reference image, and one for Image B, the image to be registered.
A common icon- , the Reset icon-appears on both the Blended and Dual pages. Use this icon if you want to restore the original version of the images. This icon deletes all points on the reference image and on the image to be registered.
Image types
The dimensions or image type of the image to be registered need not be the same as the dimensions or image type of the reference image. The registered image has the same image type as the image to be registered and the same extents as the reference image.
Special notes
References
Applying the Manual 2D Series algorithm on 2D images
Note:
Making manual adjustments to the image to be registered
To check registration, do the following:
Note: The label "0.75A" means that 75 percent of the adjusted image appears and only 25 percent of the reference image is displayed.
Note: Actually, you can change the color of the image to any color. The purpose in doing this task is to easily distinguish the adjusted image from the reference image.
You may want to maximize the window and enlarge the images so that you can view details of the images while checking alignment. To maximize the window, simply click File:ButtonRestore.jpg , the Restore button. To maximize the image, click File:RegistrationManual2DSeries54.gif , the Magnify image 2.0x icon, which magnifies the image to twice its current size, as many times as needed.
Moving the adjusted image in any direction
To move the adjusted image, click , and, holding down the left mouse button, drag the icon in the direction in which to move the image, and then release the mouse button. After a few moments, the image appears in the new position. Note that, depending on where you moved the adjusted image, its outer portions may disappear beyond the outer edges of the reference image (see Figure 3).). In this case, you can use to move the adjusted image again.
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Moving the adjusted image with the direction arrows
The icons that display direction arrows ( , the Move image up icon; , the Move image down icon; , the Move image right icon; and , the Move image left icon) let you move the adjusted image in one direction only by a specified number of pixels. The default number of pixels is 1; however, the number of pixels may be from 0.01 to 2048.0. Therefore, the direction arrows provide the greatest specificity in moving the image, which is perfect for fine adjustments.
To change the number of pixels, click , the Set pixel increment icon; enter a number in the Pixel Increment box; and click Apply.
Rotating the adjusted image
To select the center of rotation for the image, click and set the center by clicking with the mouse on the image. The letter C appears with a yellow crosshair cursor (see Figure 4]). You can then drag a line from the center of rotation to move the image above or below the center of rotation. To rotate the image clockwise, click ; and to rotate the image counterclockwise, click .
As with the direction arrow icons, you change the degree increment to achieve exact registration. The default degree increment is 1.0, but you can specify from 0.01 to 360 degrees. To change the degree increment, click , the Set degree increment icon. The Change Degree Increment dialog box appears. Enter the degree increment in the Degree Increment box, and click Apply.
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File
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Close Registration
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Closes this window without saving the images.
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Show VOIs in blended window
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Displays, on the Blended page, the VOIs that you delineated on the Dual page.
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Blended tab
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Displays the Blended page, which shows the image to be registered superimposed on the reference image. This page allows you to move and align the image to be registered with the reference image.
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Dual tab
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Displays the Dual page, which shows each image side by side, and allows you to delineate three or more landmarks on each image before you apply the Landmark-Least Squares algorithm or the Landmark-Thin Plate Spline algorithm to the images.
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Alphablending slider
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Adjusts the translucency of the alpha channels in each image using the alphablending technique. When two images share a window, you can adjust the alphablending settings so that you can see a blend of both images and can compare overlapping regions in two datasets.
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Displays the Lookup Table window, which includes two tabs: Image A, the reference image, and Image B, the image to be registered.
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Displays a checkerboard pattern on the images. You can use this pattern for assistance in aligning the images.
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Doubles the size of images, magnifying them to twice their current size. If an image is too large for the current window size, scroll bars appear, and you may need to manually adjust the size of the window.
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Reduces the magnification level of images in half. To restore images to their original size, use File:RegistrationManual2DSeries47.gif , the Magnify image 2.0x icon, as many times as you used this icon.
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Hides the reference image below a windowed mouse cursor; slide alphablending slider to the reference image
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Restores image to its original state. This icon deletes all points on the reference image and on the image to be registered. If the Apply button has already been selected, the Reset icon undoes all changes that occurred since the last time the Apply button was selected.
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Commits the changes that you made to the images, but it leaves the window open for you to make further changes if desired.
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Determines the number of pixels to use when any of the move image icons are used. When you click this icon, the Change Pixel Increment dialog box opens. {| align="center" |
Although the default is 1.0, when the pixel increment is changed to another number, that number displays on the toolbar rather than 1.0. For example, if you changed the pixel increment to 550.0, File:IconPixel550.jpg would appear on the toolbar. You can use any pixel increment from 0.01 to 2048.00.
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File:WindowManual2D-Dual.gif Â
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File
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Close Registration
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Closes this window without saving the images.
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Show VOIs in blended window
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Displays, on the Blended page, the VOIs that you delineated on the Dual page.
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Blended tab
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Displays the Blended page, which shows the image to be registered superimposed on the reference image. This page allows you to move and align the image to be registered with the reference image.
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Dual tab
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Displays the Dual page, which shows each image side by side, and allows you to delineate three or more landmarks on each image before you apply the Landmark-Least Squares algorithm or the Landmark-Thin Plate Spline algorithm to the images.
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Displays the Lookup Table window, which includes two tabs: Image A, the reference image, and Image B, the image to be registered.
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Doubles the size of reference images, magnifying them to twice their current size. If an image is too large for the current window size, scroll bars appear, and you may need to manually adjust the size of the window.
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Doubles the size of adjusted images, magnifying them to twice their current size. If an image is too large for the current window size, scroll bars appear, and you may need to manually adjust the size of the window.
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Applies the Landmark-Least Squares algorithm to the image to be registered. After the algorithm is applied, if needed, you can apply the Landmark-Thin Plate Splines algorithm on the image, or you can manually adjust the alignment of the image on the Blended page.
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Applies the Landmark-Thin Plate Spline algorithm to the image to be registered. After this algorithm is applied, if needed, you can apply the Landmark-Least Squares algorithm on the image, or you can manually adjust the alignment of the image on the Blended page.
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Restores the image to be registered to its original state. Restores image to its original state. This icon deletes all points on the reference image and on the image to be registered. If the Apply button has already been selected, the Reset icon undoes all changes that occurred since the last time the Apply button was selected.
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Adds a point to the reference image each time you click the left mouse button. Note that the points are sequentially labeled from 1 on in the order in which you created them. To remove points, return the cursor to its default mode by clicking , select the point to be deleted, and click , Delete selected reference slice markers.
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Adds a point to the adjusted image each time you click the left mouse button. Note that the points are sequentially labeled from 1 on in the order in which you created them. To remove points, return the cursor to its default mode by clicking , select the point to be deleted, and click , Delete selected adjusted slice markers.
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Returns the cursor to its default mode, which allows you to change from adding points to deleting points from the image.
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Commits the changes that you made to the images, but it leaves the window open for you to make further changes if desired.
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Applying the Manual 2D Series algorithm on 2.5 images
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Imaging Sciences Laboratory, CIT, NIH Matthew McAullife, Ph.D. mcmatt@exchange.nih.gov 301-594-2432 Building 12A, Room 2041, 9000 Rockville Pike, Bethesda, MD 20892 |