Saturn User Manual
Contents
1. 11 12 12 13 14 14 14 15 16 1 Introduction This document describes the features implemented in the DTI processing and visualization tool called Sat urn at user level The general features of this application are Object Oriented Multi platform Efficiency Easy to handle for non expert users e Wide Input Output file format support e Documentation On line availability The general view of the Saturn graphic user interface GUI appears in figure 1 This GUI 1s divided in two main panels the control panel on the left side of the main window and the visualization panel on the right side The control panel is divided 1 two panels the data panels where the data loaded and or created will be listed and the options panel where the parameters and procedures can be accessed There exist also a menu bar at the top of the main window that give access to the major part of the features included Finally a status bar is placed below the visualization panel that indicates the percentage of time taken for some processes Saturn Satum File Image View Basic Operations Filtering Segmentation Registration DTI Help 3414 Ras v Ras Type of Data Scalar Data Scalar Data View Rename Delete amp View Out Do model 20 910 z z 20 Ar v 72 Scalar magnitudes v f eP Tt 42. 0 53774 Close 26 Figure 18 DTI measures over ROIs These measures can be recomputed using the Compute button if the ROIs are changed The measures are computed using the values at the voxels To show the measures window use the Show button The values can be saved to a text file using the Save file button By default only FA values will be computed To select and deselect all the chek buttons use the Select All and Deselect All buttons Coherence values can be also obtained by activating the Coherence check button If this feature is active instead of computing the average values of each measure the coherence value for each measure will be computed 8 2 Fibers Measures The bottom section of the panel is designed to perform measures along fibers As before the same measures can be computed but this time they are computed using the fiber points instead of the voxel values Values at fiber points will be interpolated using Nearest Neighbor interpolation A new measure is included here the length If active it will show statistics about the fiber tract length To perform fiber measures select a fiber tract from the model data browser 6 and use the compute button Similarly to the ROIs measures section a window with the measure values will show up as the one in figure 19 The information presented in this window is e The total number of fibers computed in the tract e The mean maximum minimum and total amount of measure containe
3. DTI Help i v i tie cig RASH Type of Data Scalar Data v Scalar Data z E20 yy a 4 4 oM Ras Preferences Threads Viewer selected Display image properties Zoom Up viewer Hye Zoom Left Right Display cross Center Down Display Discrete Color Image Mode v Color Mode Transpose FlipX FlipY 2 DTI Info min 2 max 2 min 2 f max 2 o gt z gt Close 6 Figure 8 Scalar view selection Additionally the scalar data can be also shown 1 an independent window as the one shown in figure 7b To show that select the scalar data to visualize and click in View Out button Each 2D viewer has also a set of options accessible from the keyboard The key feature correspondence 15 outlined in the table 1 Some of the features are also available from the preferences panel shown in figure 9 This panel is accessible from the menu item Saturn gt Preferences or from the P button of each viewer From this panel some features can be controlled as for instance flip the image in any direction transpose the image zoom in and out display the cursor cross the cursor value and the image details A set of controls present of this panel are designed
4. Log Derivative respect to x and z mix with the with the previous and following slice and MIP Table 1 Available options in the 2D viewers Finally the sliders of this panel controls the intensity in the grayscale image mode gray sliders and the color range in the color image mode green sliders 3 2 3D Visualization 10 Preferences Threads Viewer Display image properties Zoom Up Display values Zoom Left Right Display cross Center Down Display Discrete Color Image Mode MG VAL Color Mode Discrete FlipX FlipY min max 2 122437 min 2 0 2 T 0 0 Figure 9 Preferences panel to control the 2D viewers 3 2 3D Visualization The 3D viewer for the visualization of scenes is shown in figure 10 This viewer can be shown using the 3D button at the top right of the main window The features supported by the 3D viewer are e Center Center the scene in the viewer e Orthogonal planes view using the coronal sagittal and axial check buttons The data shown in these planes will be the scalar data selected in the scalar data browser 2 Planes slide using the coronal sagittal and axial sliders or using the middle button of the mouse and dragging The cursor should be at the zone of the 2D outside the blue lines interior zone of the plane e Oblique planes view using the middle button of
5. appear to choose the file name and type The tensor data loaded will be listed in the tensor data browser see figure 4b and additionally a FA volume will be computed and visualized in the first 2D viewer and stored in the scalar data browser 2 Tensor Data TENSOR Data 1 TENSOR Data model Image Information input DTI Image file name Explore File Format Rename Delete v Into a b Figure 4 Input tensor data dialog window a and tensor data browser b 2 3 DWI Data To load a set of Diffusion Weighted Images DWI use the menu item File gt Open DWI The data format supported in this case is DICOM series The DWI input dialog window as the one shown in figure 5 will appear Input DWI Image input DWI Image file name Explore Open Open and process Cancel Figure 5 Input DWI data dialog window Use the explore button to go to the directory where the DWI series is stored and select one of the images Once the series is selected two different operations are supported Open it just open the volume and store it internally in a DWI object data The Open and Process where the DWI files are filtered masked the tensor is estimated and stored in the tensor data browser 4b and the FA is computed shown in the first viewer and stored in the scalar data browser 2 Notice that these set o
6. higher that a given threshold Those thresholds can be set by the user using the FA threshold and Curv Threshold sliders Additionally the step length an internal parameter that controls the tractography integration procedure can be set by the user The default value is proven to work properly for most of the cases The last parameter is the radius of the tube drawn to represent the fibers computed 5 4 Brute Force Tractography Using the Brute Force button the brute force tractography 1s computed using all the voxels over the FA threshold as seeds The result of this operation is not possible to be shown due to the high amount of data obtained typically by this operation In order to show a set of fibers computed with the brute force algorithm the select fibers button is needed After clicking that button the fibers that pass through the ROIs drawn are visualized and stored in the model data browser 6 5 5 Logic Operations The logic operations allow to use several ROIs with different labels or classes to refine the fiber tracts computation The logic operations are available using the Tractog Logic button and it is only available if a brute force operation has been previously performed in the data Two operations are permitted here AND and NOT To use OR operation just use the Select Fibers button The AND operation computes the fibers that pass trough the ROIs defined by the labels and ROI2 The NOT operation excludes all the f
7. the mouse and dragging The mouse must be located in the zone of the plane marked by the blue lines see figure 11 e Color image mode Change the to image mode in the planes to RGB mode with the Color button e Gray image mode Change the to image mode in the planes to grayscale mode with the Gray button e Planes intensity change Using the right button of the mouse and dragging e Planes value view Left clicking with the mouse a red cross in the plane appears as well as the position value and the value see figure 11b e Plane Opacity Change the opacity shown in the 2D planes using the Opacity slider e Zoom in and out it can be using the and buttons and also by right clicking and moving the mouse e Rotate scene Using the mouse left button and dragging e Translate the scene Using the mouse middle button and dragging e Predefined views using the A P L R I and S buttons 11 Sagital Color A L opacity 4 si Gray R I S zoom Figure 10 3D Viewer 4 Scalar Magnitudes The scalar magnitudes derived from DTI data available in Saturn are accessible from the calar magnitudes panel shown in figure 12 These are Fractional Anisotropy FA Relative Anisotropy RA Mean Dif fusivity MD Color by Orientation Geometric Coefficients linear planar Cp and spherical Cs eigenvalues ordered from high to low major Eig 1 middle Eig 2 and minor
8. Eig 3 and tensor com ponents Dy Dry Dyy Dyz and Dz Representing the tensor D as a positive semidefinite 3x3 matrix there exist only six independent components D Dy Dy Dy Dz 1 NX N There is a button for each scalar magnitude After a button 15 pressed the corresponding scalar data is computed and stored in the scalar data browser 2 except for the color by orientation In that case the resulting RGB image is shown in the fourth viewer bottom right 2D viewer and no scalar magnitude 15 stored The color codes in this images by convention is red for RL direction green for AP direction and blue for IS direction A screenshot with some scalar magnitudes computed and visualized is the shown in figure 13 12 94 97 27 0 140498 7 a b Figure 11 3D viewer with oblique plane a and cursor value view b 5 Tractography This section explains the different modes to perform the tractography in Saturn In figure 14 the features and parameters related to tractography are available The panel is divided into four sections Color Parameters ROIs and Execution In the following all these sections are explained in detail 5 1 Color options The first section of the panel controls the color code used for the fibers to be computed There are six posibilities 1 FA Color by FA red colors are assigned to points with low FA blue to points with large FA and green to p
9. Saturn User Manual Ruben Cardenes May 22 2009 Image Processing Laboratory University of Valladolid Abstract Saturn is a software package for DTI processing and visualization provided with a graphic user in terface GUI This document describes the steps required to load DTI data and to operate with them compute and visualize scalar magnitudes derived from DTI data perform tractography perform auto matic fiber clustering compute measures over regions of interest ROIs and along fiber tracts and edit fibers and ROIs Contents Contents 1 Introduction 2 Input Output Formats Se Tg ck oe CARRE EEA GASH EHR eee oe POC o tae eee BE EEE ee Ree ee ees 24 Model Dat 2 1 ck bd ERRORS HORDE wD ww 3 Visualization Sl 2D Visalia sic eee ee eh ee eee ee eee ee ewe See wh eee 3 2 3D Visualization te he bee eSB EeESeE REO HE OR OEE EELS 4 Scalar Magnitudes 5 Tractography nr a a cn ne a ea a a cr ee er ee ee se epea Sakae eeeeeeeshaes eee eRe ee eRe SE EEE 8 Eee 5 3 Normal Tractography 5 4 Brute Force Dis EASA ERE REE RHEE KEES 6 Automatic Fiber Clustering 7 Fiber Edition Measures 1 Mule Measures 2 6c ce bebe bebe s dh bbb Sew 8 2 Fibers
10. cig RASH v fle PITI i 4 c g RAS Color 20 0 a gt 118208 A gt Close DA a Vy Figure 1 General view of the Saturn GUI Three direct access buttons are also available in the top right part of the main window 3D 3 1 and 4x2D to choose between the available visualization modes This document consists on the following sections First in section 2 the input output data formats are de scribed then in section 3 the visualization modes and features are explained then in section 4 it 1s described how to compute and visualize scalar magnitudes from DTI In section 5 the tractography techniques are described at user level In section 6 it is described how to use the automatic fiber clustering method then section 7 describes the fiber edition procedures included and then section 8 describes how to obtain different measures from DTI data 2 Input Output Formats 21 Scalar Data To load scalar data use the menu item File gt Open Scalar The input scalar data formats supported by Saturn are JPEG TIFF PNG MetaFile Kretz Raw data DICOM and DICOM series In figure 2a it is shown the dialog window for the scalar data entry information The first three formats JPEG TIFF PNG can only load 2D images whereas the formats MetaFile Kretz Raw data DICOM and DICOM series support 2D or 3D data If the Raw data format is chosen a new d
11. d in the fiber tract for each measure e The integrity FA value last value in the FA box The computation of these measures is optimized and 1s computationally less expensive than ROIs measures computation in normal size tracts By default only FA values will be computed To select and deselect all the chek buttons use the Select All and Deselect All buttons Again the Show and Save file buttons are used to show up the measures window and to save the obtained measures in a text file 8 2 Fibers Measures 000 _ Fiber Measures Mean 0 439688 Max 0 506132 Min 0 353220 Tot 3857 864502 28 366652 Mean 0 001666 Max 0 003306 Min 0 000839 Tot 13 783497 Mean 0 001419 Max 0 002976 Min 0 000645 Tot 0 072621 Mean 0 399340 Max 0 474588 Min 0 306689 Tot 3508 087402 Mean 0 001410 Max 0 002754 Min 0 000737 Tot 11 693645 Mean 0 000044 Max 0 000289 Min 0 000265 Tot 0 003712 Mean 0 075368 Max 0 080377 Min 0 072372 Tot 658 573486 Mean 0 001296 Max 0 002281 Min 0 000594 Tot 10 739841 Mean 0 000036 Max 0 000268 Min 0 000550 Tot 0 012430 size Mean 124 88143 Max 210 989883 Min 59 553829 Mean 0 002522 Max 0 008740 Min 0 000729 Tot 20 526873 Mean 0 001493 Max 0 003003 Min 0 000732 Tot 0 075972 Mean 0 001118 Max 0 005866 Min 0 000106 Tot 9 389588 Mean 0 000046 Max 0 000195 Min 0 000215 Tot 0 009763 Mean 0 012893 Max 0 021144 Min 0 006542 Tot 106 083466 Mean 0 001460 Ma
12. dius and label that can be changed in the ROIs section of the Tractography panel By dragging the mouse while left clicking it is possible to draw ROIs in any of the orientations axial sagittal or coronal and in any slice To remove all the ROIs drawn use the clear or to erase part of the ROIs choose class 0 and draw using the mouse It is also possible to change the opacity of the ROIs using the opacity slider To load ROIs from a file use the load button or use the File gt Load ROIs menu item It is also possible to save the ROIs using the File gt Load ROIs menu item Tractography Options Color MFA Size RGB Distance Major Eig Set fiber color Parameters 0 30 Radius 7 00 Step Length oi J FA threshold 90 Curvy Thresh ROI S 10 ticked radius class opacity show clear 2 rI 1 000 Execution l Tractography Brute force Tractog Logic Excl all Tractog Auto Select Fibers ROI 1 1 195 2 1 Sex Figure 14 Tractography control panel 5 3 Normal Tractography The most simple tractography procedure can be done using the Tractography button The result will be the set of fibers that start from the ROIs drawn There exist two stopping criteria for the algorithm the mini mum FA the fiber path computation is stopped if the FA is lower that a given threshold a maximum angle the fiber path computation is stopped if the curvature angle is
13. f procedures are computationally expensive 2 4 Model Data 6 taking from 1 to 10 minutes depending on the machine processor load of the system and operating system used 2 4 Model Data To load model data fiber tracts use the menu item File gt Open Model The input model data format supported by Saturn is vtk The loaded data will appear in the model data browser see figure 6 Any operation over model data will be performed over the data currently selected in that browser To save model data go to File gt Save Model and choose a file name for the model The model saved will be the one selected in the browser Pyramidal left Figure 6 Model data browser Visualization 3 1 2D Visualization Once the data is loaded it appears in one of 2D viewers of the visualization panel as the one shown in figure 7a These viewers always show 2D images but they are able to show orthogonal cuts of the volume loaded pressing the buttons 0 1 2 when the cursor is over them or using the selection box at the bottom right of each viewer There is also a slider at the bottom of each viewer that allows to change the slice shown in volume data Aux 1 EKAk OLARA JELA KALS MAILE 991909 my pem vel elie slice max 81 06 2a 17 1 4 Figure 7 2D Viewer and independent window viewer b There exist also several buttons in the top of each
14. factor 12 SagL Cora Cut dg gogo oe Scalar range 000 T 00 set range Opacity ial Diffuse 0 0 Ambient 0 0 Specular 0 3 Specular Power 0 Size Figure 16 Fibers edition control panel 8 Measures The control panel to perform measures Measures panel is shown in figure 17 This panel is available from DTI gt measures menu item and from the Stats button in the model data browser 6 Two different measure types can be performed here ROIs measures and Fibers measures DTI Measures ROIs VFA RA MD Eigenvalues Geometric Coefficients Dxx Dxy Dyy Dyz Dzz Coherence Compute Show file Deselect All Select All Fibers RA MD W Length Eigenvalues Geometric Coefficients Tensor Components Compute Show Savefile Deselect All Select All Figure 17 DTI measures control panel 8 1 ROIs Measures To perform measures over ROIs the user should draw or load ROIs These ROIs will de displayed overlaid with the data in any of the 2D viewers To obtain the measure results first go to the Tractography Auto panel and select the labels of the regions that are to be used Then go back to the Measures panel and use the Compute button The measures corresponding to the active chek buttons FA RA MD Eigenvalues Geometric Coefficients and or Tensor components will be co
15. ialog window figure 3 is opened where the user is asked to introduce the image dimensions the pixel type and the byte order Image Information Scalar Data Input image image file name 2 Explore RA File Format MD Choose format Pixel components 1 Input Image 1 m Image 2 oO Image 3 O Image 4 O View 5 View model a b Figure 2 Input scalar data dialog window a and scalar data browser b AOC Input Image parameters Image Image dimensions x p56 256 2 Voxel size x f1 y f1 7 Pixel Type Byte order Choose pixel type Choose Figure 3 Input scalar data dialog window 2 2 Tensor Data 5 The image or volume loaded will appear in any of the three first 2D viewers placed in the visualization panel the bottom right viewer is reserved for color images You can select any of the three viewers to see the new images with the check buttons that appears in the open file dialog The loaded data will appear in the scalar data browser shown in figure 2b Any operation over scalar data will be performed over the data currently selected in the scalar data browser 2 2 Tensor Data To load tensor data use the menu item File gt Open Tensor The input tensor data format supported by Saturn are vtk and nrrd The input dialog window shown in figure 4a will
16. ibers that pass trough the ROI defined by the label in Ex 15 6 Automatic Fiber Clustering Automatic fiber Clustering is one of the most advanced features implemented in Saturn It can be performed from the Tractography Auto panel see figure 15 available with the Tractog Auto button or with the DTI gt Tractography Auto menu item There are three external files required for this procedure model vtk ROIs mhd and ROIs raw that have to be located in the same path as the executable Saturn file A list of fiber tracts is shown in this panel representing the main anatomical fiber tracts of the human brain Each of them has associated an index value that corresponds to a ROI label To perform an automatic trac tography over a loaded DTI data first select the fibers to be computed in the check buttons Then use the Do Tract button This will perform a non rigid registration based on the FA model volume and the FA vol ume of the tensor data selected in the tensor data browser 4b which 15 computationally expensive This process is known as normalization After that a brute force tractography is performed over the DTI data using the FA threshold of the Tractography panel and the tracts are computed using the corresponding warped ROIs If the Do Tract 15 pressed again the normalization and the brute force procedures are not recomputed The normalization process can be performed separately using the Normalize button In this latter case n
17. ined by the axial plane in the 3D viewer to the highest inferior position Cut the selected in the axial direction from the position defined by the axial plane in the 3D viewer to the highest superior position e Order Fib Ax Order the fiber points from inferior to superior and the fibers from anterior to posterior e Order Fib Sag Order the fiber points from inferior to superior and the fibers from left to right e Save Profile Save the fiber tract FA profile to a text file from inferior to superior direction previous ordering of fiber points is needed to ensure a valid profile In the color section of this panel the fiber tracts can be assigned with different colors Three color modes can be used color by FA color by fibers size and predefined colors In the two first modes the color code varies from red to blue passing through green with red corresponding to low values blue to high values and green to intermediate values The range used to map the colors in these two cases can be set with the scalar range slider scalar range button Fourteen predefined colors can be selected with the rest of buttons included in this section The sliders of the last section allows to change the opacity diffuse ambient specular and specular power of the selected model 17 Model Prop Parameters Order Fib Ax Order Fib Sg Save Profile Resize from seeds 0 1 Sag R Axial Resize Fibers Remove Fibers Axial 5
18. mputed over the selected ROIs and shown in a separate window as the one in figure 18 The values obtained are the average measure values in the ROIs 8 2 Fibers Measures 18 specified ROIs Measures FA 0 41005 0 36599 0 31453 0 30246 0 36047 0 40470 0 35792 0 32650 0 29853 0 33162 0 36507 0 31750 0 26883 0 25846 0 31865 0 35910 0 31133 0 27956 0 25383 0 28663 El 3 30434 3 82873 2 65242 2 92558 3 11927 3 22664 3 81500 2 70708 2 87069 2 98893 2 1 97090 2 43332 1 79163 1 99933 1 84560 1 94479 2 43229 1 79902 1 98205 1 90348 1 53677 2 02751 1 41647 1 61215 1 53878 1 50694 2 07690 1 41219 1 58289 1 59761 MD 2 27067 2 76319 1 95351 2 17902 2 16788 2 22612 2 77473 1 97277 2 14521 2 16334 DO 2 04425 2 35717 1 91096 2 00028 2 35075 1 97953 2 28819 2 08334 1 93621 2 19236 Dl 0 07168 0 00198 0 04718 0 01714 0 04368 0 05457 0 07065 0 16476 0 00902 0 01068 D2 0 19563 0 00569 0 03315 0 11125 0 01448 0 02201 0 08416 0 10242 0 19971 0 02997 D3 2 01561 2 71067 2 21474 2 38009 2 19858 2 04197 2 70078 2 21173 2 51452 2 39944 0 07037 0 25463 0 03706 0 07658 0 08894 0 03061 0 50854 0 05333 0 07241 0 10973 D5 2 75216 3 22172 1 73483 2 15672 1 95432 2 65686 3 33522 1 62322 1 98490 1 89822 Cl 0 40886 0 37950 0 31891 0 30904 0 38179 0 40157 0 38186 0 32992 0 30230 0 35452 Cp 0 14080 0 12515 0 13921 0 13433 0 10471 0 14468 0 10587 0 14185 0 13871 0 10774 Cs 0 45034 0 49535 0 54188 0 55663 0 51349 0 45375 0 51227 0 52824 0 55898
19. o fiber tracts are computed In order to refine the fiber tracts obtained the Auto Select button can be used instead of Do Tract in order to include automatically logic operations If the warped ROIs are available in a file from a normalization procedure made before over this data the Load ROI button can be used to skip the normalization process The Select Tract button is used to obtain the tracts once the normalization and the brute force tractography have been performed The Do Connect button do the same operation than the Select Tract button but including logic operations Tractography Auto Parameters Tracts Left Right 15 iam 230008 CEHAJ C EES 148 icp_ CEATA _ J r oa ir st j ET Do Tract Normalize Load ROI Select all Auto Select Select Tract Do Connect Main Figure 15 Automatic fiber clustering control panel The Select all button select and deselect all the fiber tracts check buttons and the main button returns to the Tractography panel 14 16 7 Fiber Edition In figure 16 the control panel for fiber edition procedures is shown The operations permitted in the first section are e Resize from seeds In the selected fiber tract reduce the fibers larger than a factor of the average length to that value All the fibers larger than the value factor Lm are reduced to tha
20. oints with intermediate FA values By default the color range is assigned from 0 to 0 8 2 Size Color by fiber size red colors are assigned to short fibers blue to large fibers and green to intermediate size fibers The scale is done independently for each fiber tract computation 3 RGB The fiber is colored depending on the seed label or class 4 Distance Color by distance of the points to the nearest seed in each fiber 5 Major Eig Color by the major eigenvalue red colors are assigned to points with low first eigenvalue blue to points with large first eigenvalue and green to points with intermediate first eigenvalue By default the color range is assigned from 0 to 0 8 6 Predefined color The fibers will be colored with one of the predefined colors skin bone gray red green blue and sea 5 2 ROls Edition 13 Scalar magnitudes Basic Color Advanced 1 410 8298 18 v alie grist vi vite Ti _ o Rast tie Pitt bi Figure 13 Scalar magnitudes FA MD C and color by orientation 5 2 ROIs Edition First it it is necessary in all the tractography modes to draw or select a region of interest ROI This is done in the 2D viewers by left click with the mouse over it The user can add a ROI with a predefined ra
21. t value removing points in order of distance to the seeds defined by the label selected where Lm 1s the average fiber length and factor is set by the user with the factor slider e Resize fibers In the selected fiber tract reduce the selected fibers larger than a factor of the average length to that value All the fibers larger than the value factor Ly are reduced to that value removing points in order of storing position where Lm and factor the same as in the previous case e Remove fibers In the selected fiber tract remove the selected fibers larger than a factor of the average length All the fibers larger than the value factor Lm are removed where Lm and factor are the same as in the previous cases e Cut fibers Six cut operations can be performed Cut the selected fibers in the sagittal direction from the position defined by the sagittal plane in the 3D viewer to the highest left position Cut the selected fibers in the sagittal direction from the position defined by the sagittal plane in the 3D viewer to the highest right position Cut the selected fibers in the coronal direction from the position defined by the coronal plane in the 3D viewer to the highest anterior position Cut the selected fibers in the coronal direction from the position defined by the coronal plane in the 3D viewer to the highest posterior position Cut the selected fibers in the axial direction from the position def
22. to control an important feature available in the viewers which are the image modes The image can be shown in two different image modes grayscale image mode and color image mode The Image mode box changes the different color maps available in the grayscale image mode which are VAL intensity INV inverse intensity LOG logarithmic scale DX derivate respect to x DY derivate respect to x DZ derivate respect to z BLEND mix with the with the previous and following slice and MIP projection of all the values The Color mode box box changes the different color maps available for the color image mode which are FA ROIs Heat and Discrete 3 1 2D Visualization 9 2 See cuts in the z axis SSS 2 r h X 2 Diminishes increases the top limit of the window in intensity e a Diminishes increases the lower limit of the window in intensity alternates the values of the lower limit windows in intensity between i A See axis labels P posterior L left S superior See crosses where the cursor is alternates the values of the top limit windows in intensity between clipping and setting to black lt lt q W S T Change the coordinates between index and physical units _ See image details Seea superposed cobor oO o Save to a file the clicked poins 1 Change the the screen data showing way Ways change cyclically in the following views Intensity Inverse
23. viewer From left to right these buttons are e Show details button Shows image details overlaid in the viewer e Show value button Shows cursor position and image value at that position overlaid in the viewer e Flip vertically Flip the image vertically e Flip horizontally Flip the image horizontally e Show preferences Show the preferences panel e Zoom in Zoom in the image e Zoom out Zoom out the image e Translate right Translate right the image if zoom in is on e Translate left Translate left the image if zoom in is on e Translate up Translate down the image if zoom in is on e Translate down Translate down the image if zoom 1 is on e Show in Color Show the image in RGB color maps e Show in Gray Show the image in grayscale color maps 3 1 2D Visualization 8 Show anatomical labels Shows anatomical labels A P R L I S overlaid in the viewer e Expand the viewer Maximize the viewer to the maximum size of the visualization panel The scalar data can be shown in any of the viewers using the View button placed in the scalar data panel In figure 8 we show an example of this Once pressed the View button the scalar data currently selected in this case Volume FA is shown in the selected viewer upper right viewer To select a viewer just check the check button placed at the bottom right of each viewer as shown also in figure 8 Satum Fie Image View Basic Operations Filtering Segmentation Registration
24. x 0 002449 Min 0 000757 Tot 0 107534 Figure 19 DTI measures computed along the fibers 19
Download Pdf Manuals
Related Search