Differences between revisions 2 and 3
Deletions are marked like this. Additions are marked like this.
Line 4: Line 4:
----- /!\ Edit conflict! Other version: -----
Line 5: Line 6:
----- /!\ Edit conflict! Your version: -----
Selections are also called labels or ROIs. You can read or write selections from and to label files or create them from within TkMedit. Note that there is only one selection in TkMedit, even though it doesn't have to be contiguous.
----- /!\ End of edit conflict -----
Line 8: Line 12:
----- /!\ Edit conflict! Other version: -----
----- /!\ Edit conflict! Your version: -----
----- /!\ End of edit conflict -----
Line 11: Line 18:
----- /!\ Edit conflict! Other version: -----
Line 12: Line 20:
----- /!\ Edit conflict! Your version: -----
Selections are drawn as a green overlay. This overlay can be turned off by unchecking Views, Selection / Label.
----- /!\ End of edit conflict -----
Line 19: Line 30:
----- /!\ Edit conflict! Other version: -----
Line 35: Line 47:
----- /!\ Edit conflict! Your version: -----
You can select and deselect voxels with the Select Voxels Tool, which can be activated by pushing the button on the Main Toolbar, by choosing Tools, Select Voxels, or by pressing the 's' key.
Line 36: Line 50:

This tool is a brush tool, so it uses the global brush settings available in Tools, Configure Brush Shape... and in the Reconstruction Toolbar. You can think of selecting and deselecting voxels as painting your selection. To select voxels, use mouse button 2 to draw your selection and button 3 to erase it.


You can also use a flood fill to select and deselect contiguous areas. Open the configuration dialog box with the Tools, Configure Flood Select...command. Here, you have options for the making the fill 2D or 3D, settings the source, and the fuzziness and distance parameters.


Source Volume: Specifies which volume to use when looking for similar voxels, so that the Main, Aux, or segmentation volumes can be used to look for regions.

Fuzziness: Determines the level of similarity to consider when finding regions. If it is 0, only voxels with exactly the same value as the voxel clicked will be set. If it is greater than 0, this is the maximum value difference from the clicked voxel that a contiguous voxel can have to be considered in the same region.

Distance: Determines the maximum size of the region to fill from the clicked voxel. If it is 0, there will be no distance limit.

3D: Determines if the fill is in-plane only or will fill in three dimensions.


Once you have configured your fill, perform it with shift-mouse button-2 or 3; 2 will select an area, and 3 will deselect an area.
----- /!\ End of edit conflict -----
Line 42: Line 74:
----- /!\ Edit conflict! Other version: -----
Line 43: Line 76:
----- /!\ Edit conflict! Your version: -----
TkMedit reads and writes label files. This file format is basically a list of points in RAS coordinate space with some header information. They can be loaded into TkSurfer if they intersect with a surface.
----- /!\ End of edit conflict -----

Selections / Labels


/!\ Edit conflict! Other version:


Selections are also called labels or ROIs. You can read or write selections from and to label files or create them from within TkMedit. Note that there is only one selection in TkMedit, even though it doesn't have to be contiguous.


/!\ Edit conflict! Your version:


Selections are also called labels or ROIs. You can read or write selections from and to label files or create them from within TkMedit. Note that there is only one selection in TkMedit, even though it doesn't have to be contiguous.


/!\ End of edit conflict



/!\ Edit conflict! Other version:



/!\ Edit conflict! Your version:



/!\ End of edit conflict


Display Options


/!\ Edit conflict! Other version:


Selections are drawn as a green overlay. This overlay can be turned off by unchecking Views, Selection / Label.


/!\ Edit conflict! Your version:


Selections are drawn as a green overlay. This overlay can be turned off by unchecking Views, Selection / Label.


/!\ End of edit conflict


Selecting and Deselecting


/!\ Edit conflict! Other version:


You can select and deselect voxels with the Select Voxels Tool, which can be activated by pushing the button on the Main Toolbar, by choosing Tools, Select Voxels, or by pressing the 's' key.

This tool is a brush tool, so it uses the global brush settings available in Tools, Configure Brush Shape... and in the Reconstruction Toolbar. You can think of selecting and deselecting voxels as painting your selection. To select voxels, use mouse button 2 to draw your selection and button 3 to erase it.

You can also use a flood fill to select and deselect contiguous areas. Open the configuration dialog box with the Tools, Configure Flood Select...command. Here, you have options for the making the fill 2D or 3D, settings the source, and the fuzziness and distance parameters.

Source Volume:" Specifies which volume to use when looking for similar voxels, so that the Main, Aux, or segmentation volumes can be used to look for regions. "Fuzziness:" Determines the level of similarity to consider when finding regions. If it is 0, only voxels with exactly the same value as the voxel clicked will be set. If it is greater than 0, this is the maximum value difference from the clicked voxel that a contiguous voxel can have to be considered in the same region. "Distance:" Determines the maximum size of the region to fill from the clicked voxel. If it is 0, there will be no distance limit. "3D:" Determines if the fill is in-plane only or will fill in three dimensions.

Once you have configured your fill, perform it with shift-mouse button-2 or 3; 2 will select an area, and 3 will deselect an area.


/!\ Edit conflict! Your version:


You can select and deselect voxels with the Select Voxels Tool, which can be activated by pushing the button on the Main Toolbar, by choosing Tools, Select Voxels, or by pressing the 's' key.

This tool is a brush tool, so it uses the global brush settings available in Tools, Configure Brush Shape... and in the Reconstruction Toolbar. You can think of selecting and deselecting voxels as painting your selection. To select voxels, use mouse button 2 to draw your selection and button 3 to erase it.

You can also use a flood fill to select and deselect contiguous areas. Open the configuration dialog box with the Tools, Configure Flood Select...command. Here, you have options for the making the fill 2D or 3D, settings the source, and the fuzziness and distance parameters.

Source Volume: Specifies which volume to use when looking for similar voxels, so that the Main, Aux, or segmentation volumes can be used to look for regions.

Fuzziness: Determines the level of similarity to consider when finding regions. If it is 0, only voxels with exactly the same value as the voxel clicked will be set. If it is greater than 0, this is the maximum value difference from the clicked voxel that a contiguous voxel can have to be considered in the same region.

Distance: Determines the maximum size of the region to fill from the clicked voxel. If it is 0, there will be no distance limit.

3D: Determines if the fill is in-plane only or will fill in three dimensions.

Once you have configured your fill, perform it with shift-mouse button-2 or 3; 2 will select an area, and 3 will deselect an area.


/!\ End of edit conflict


Saving and Loading


/!\ Edit conflict! Other version:


TkMedit reads and writes label files. This file format is basically a list of points in RAS coordinate space with some header information. They can be loaded into TkSurfer if they intersect with a surface.


/!\ Edit conflict! Your version:


TkMedit reads and writes label files. This file format is basically a list of points in RAS coordinate space with some header information. They can be loaded into TkSurfer if they intersect with a surface.


/!\ End of edit conflict


TkMeditGuide/TkMeditWorkingWithData/TkMeditSelectionsLabels (last edited 2011-06-27 13:01:23 by LouisVinke)