BlockedVolume Properties
BlockedVolume
properties control the appearance and behavior of a
BlockedVolume
object. By changing property values, you can modify certain
aspects of the displayed volume. Create a BlockedVolume
object using the
volshow
function.
Use dot notation to query and set properties. For example, these commands show how to
create a BlockedVolume
object for the blockedImage
object
bim
, query the value of the Colormap
property, and
set the value of the Colormap
property, respectively.
bVol = volshow(bim); cmap = bVol.Colormap; bVol.Colormap = parula;
Parent/Child
Blocked Image Display
ResolutionLevel
— Resolution level to display
"fine"
(default) | "coarse"
| positive integer
Resolution level to display, specified as "fine"
,
"coarse"
, or as a positive integer. If the
ResolutionLevel
value is "fine"
or
"coarse"
, the viewer displays the finest or coarsest resolution
level, respectively. If you do not specify ResolutionLevel
directly, the viewer sets the resolution level using the "auto"
behavior of ResolutionLevelMode
.
Example: volshow(bim,ResolutionLevel=3)
displays the third
resolution level in the blocked image.
ResolutionLevelMode
— Resolution level mode
"auto"
(default) | "manual"
Resolution level mode, specified as one of these values:
"auto"
— Automatically set the resolution level based on the parent viewer and available screen size. For example, the displayed resolution level changes when you zoom in or out."manual"
— Manually set a fixed resolution level using theResolutionLevel
property. Specifying theResolutionLevel
property automatically setsResolutionLevelMode
to"manual"
.
This property has no effect if the blocked image has only one resolution level.
CachingStrategy
— Block caching strategy
"auto"
(default) | "none"
| "all"
| positive numeric scalar
Block caching strategy, specified as "auto"
,
"none"
, "all"
, or a positive numeric scalar.
This property specifies whether the BlockedVolume
object stores image
blocks in memory after reading them from the file, or rereads them from the file each
time you update properties or interact with the display. Storing blocks in memory
generally improves rendering performance, but can cause some systems to run out of memory.
"auto"
— Store some blocks in memory. MATLAB® automatically determines the number of blocks to store in memory based on the amount of available memory."none"
— Store no blocks in memory. Use this value when your system has only a small amount of CPU memory available."all"
— Store all blocks in memory after initially reading them from the file. Use this value only if your system has enough memory to store all blocks simultaneously. This option can cause some systems to run out of memory.Positive numeric scalar — Store blocks in memory up to a specific cache size, in GB.
MemoryUsed
— Approximate memory used by block cache
positive numeric scalar
This property is read-only.
Approximate memory used by the block cache, stored as a positive numeric scalar, in GB. This property provides an approximation of the memory used by the object to store image blocks. This value does not account for peak memory required when reading blocks from the file, or when copying data onto the computer graphics card. This value does not account for other memory used by MATLAB.
Data Display
Data
— Volumetric blocked image data
blockedImage
object
Volumetric blocked image data displayed in the viewer, specified as a
blockedImage
object that reads 3-D blocks of grayscale, RGB, or RGBA
data. The blockedImage
can have a single resolution level or multiple
resolution levels. If the blockedImage
object has more than one
resolution level, you can specify which level to render by setting the
ResolutionLevel
property.
DisplayRange
— Display range
2-element row vector | 3-by-2 numeric matrix
Display range used to map voxel values to the color map and transparency map, specified as one of these values:
2-element row vector of the form
[min max]
— Scale data according to the valuesmin
andmax
. For RGB volumes, specifying a 2-element row vector applies the same data limits to all color channels.3-by-2 numeric matrix with each row of the form
[min max]
— Scale each RGB channel according to the valuesmin
andmax
in the corresponding row. The first, second, and third rows of the numeric matrix specify the data limits for the red, green, and blue color channels, respectively.
If you know the minimum and maximum values of the data in the blocked
volume, specify DisplayRange
to ensure accurate scaling. If you do
not specify a DisplayRange
value, by default, the function
automatically scales the data based on the DisplayRangeMode
.
DisplayRangeMode
— Display range mode
"data-range"
| "type-range"
| "10-bit"
| "12-bit"
| "manual"
Display range mode, specified as one of the options in the table.
Value | Description |
---|---|
"type-range" | Set the display range equal to the data type range. For example,
for This is the default value when the
|
"data-range" | Set the display range equal to the data range of the volume. For RGB volumes, the data range is the overall minimum and maximum across channels. For example, given an RGB volume in which the minimum and maximum values of the R, G, and B channels are [2, 160], [5, 200], and [0, 140], respectively, the display range is [0, 200]. This is the default value when the blocked image volume is available in memory, or points to a file-backed volume that contains a coarse resolution level in which the largest dimension is smaller than 512 voxels. |
"10-bit" | Set the display range to [0, 1023] . This value is
useful for displaying medical images with 10-bit data ranges. |
"12-bit" | Set the display range to [0, 4095] . This value is
useful for displaying medical images with 12-bit data ranges. |
"manual" | Manually set a fixed display range using the DisplayRange argument. Specifying the
DisplayRange automatically sets the
DisplayRangeMode property value to
"manual" . |
Alphamap
— Transparency map for volume data
linspace(0,1,256)'
(default) | n-element column vector | "linear"
| "quadratic"
| "cubic"
Transparency map for the volume, specified as one of the values in the table.
The DisplayRange
property determines how values of
Data
map to the transparency map. Values less than or equal to
the minimum of the DisplayRange
map to the first value of the
transparency range, and all values greater than or equal to the maximum of the
DisplayRange
map to the last value of the transparency
range.
For RGBA volumes, the Alphamap
property has no effect. The
transparency of each voxel is specified by the alpha channel values.
Value | Description |
---|---|
n-element column vector with values in the range [0, 1] | Values in Data map linearly to the transparency
values in Alphamap . |
| Values in Data map linearly to transparencies in the
range [0, 1]. |
| Values in Data map quadratically to transparencies
in the range [0, 1]. Use this option to apply a more rapid change in
transparency between low and high values of Data compared
to "linear" . |
| Values in Data map cubically to transparencies in
the range [0, 1]. Use this option to apply the most rapid change in
transparency between low and high values of Data . |
Colormap
— Colormap
gray(256)
(default) | n-by-3 numeric matrix
Colormap of grayscale volume content, specified as an n-by-3
numeric matrix with values in the range [0, 1]. The maximum number of colors
n is 256. You can specify the colormap as a numeric matrix
directly, or as the name of predefined colormap such as turbo
or
parula
. For a complete list of colormaps, see Colormaps. This property has no effect when viewing
RGB volumes.
Visible
— Object is visible
"on"
(default) | on/off logical value
Object is visible in the 3-D scene, specified as "on"
or "off"
, or as a numeric or logical
1
(true
) or 0
(false
). A value of "on"
is equivalent to
true
, and "off"
is equivalent to
false
. The value is stored as an on/off logical value of type OnOffSwitchState
.
Transformation
— Transformation applied to volume
affinetform3d
object | rigidtform3d
object | simtform3d
object | transltform3d
object
Transformation applied to the volume in the 3-D scene, specified as an affinetform3d
, rigidtform3d
,
simtform3d
,
or transltform3d
object. Use the Transformation
property to increase the size of the
volume, rotate the volume, or perform other affine transformations. The default value is
an affinetform3d
object that performs an identity
transformation.
ClippingPlanes
— Clipping planes
[]
(default) | N-by-4 matrix
Clipping planes applied locally to the object, specified as an N-by-4 matrix where each row corresponds to the equation for a clipping plane. The maximum number of clipping planes, N, is six. Each clipping plane is specified as a 1-by-4 vector, in world coordinates, following the Hessian normal form where the first three values represent the plane's normal vector and the fourth value is the signed distance from the origin to the plane.
Volume Rendering
RenderingStyle
— Rendering style
"VolumeRendering"
(default) | "MaximumIntensityProjection"
| "MinimumIntensityProjection"
| "GradientOpacity"
| "Isosurface"
| "SlicePlanes"
Rendering style, specified as one of the values in the table.
Value | Description |
---|---|
"VolumeRendering" | View the volume based on the specified color and transparency for each voxel. |
"MaximumIntensityProjection" | View the voxel with the highest intensity value for each ray projected through the data. For RGB volumes, the luminance of the voxel in CIE 1976 L*a*b* color space. |
"MinimumIntensityProjection" | View the voxel with the lowest intensity value for each ray projected through the data. For RGB volumes, the luminance of the voxel in CIE 1976 L*a*b* color space. |
"GradientOpacity" | View the volume based on the specified color and transparency with an
additional transparency applied if the voxel is similar in intensity
(grayscale volumes) or luminance (RGB volumes) to the previous voxel along the
viewing ray. When a volume with uniform intensity is rendered using
|
"Isosurface" | View an isosurface of the volume specified by the value in
|
"SlicePlanes" | View three orthogonal slice planes. |
IsosurfaceValue
— Isosurface value
0.15
(default) | numeric scalar
Isosurface value, specified as a numeric scalar in the range [0, 1]. This property
affects the visualization only when the RenderingStyle
property value is
"Isosurface"
.
SlicePlaneValues
— Orthogonal or oblique slice planes
N-by-4 matrix
Orthogonal or oblique slice planes of the volume, specified as an
N-by-4 matrix where each row corresponds to the equation for a
slice plane. The maximum number of slice planes, N, in
is six. The slice planes
are visible only when the SlicePlaneValues
RenderingStyle
property is "SlicePlanes"
.
The default value is three orthogonal planes that slice through the center of the
volume. Each slice plane is specified as a 1-by-4 vector in voxel coordinates following
the Hessian normal form where the first three values represent the normal vector of the
plane and the fourth value is the signed distance from the origin to the plane.
GradientOpacityValue
— Gradient opacity value
0.3
(default) | number in range [0, 1]
Gradient opacity value, specified as a number in the range [0, 1]. When set to
0
, no gradient opacity is applied. When set to
1
, the maximum amount of gradient opacity is applied.
This property
affects the visualization when the RenderingStyle
property value is
"GradientOpacity"
or the OverlayRenderingStyle
property value is
"GradientOverlay"
.
Overlay
OverlayData
— Overlay data
blockedImage
object
Overlay data to blend with the object data during rendering, specified as a
blockedImage
object that reads blocks of 3-D grayscale data. The
viewer shows the overlay only when the RenderingStyle
property value is
"SlicePlanes"
, "VolumeRendering"
, or
"GradientOpacity"
. You can modify the appearance of the overlay by
changing the OverlayRenderingStyle
, OverlayColormap
, and OverlayAlphamap
properties.
OverlayDisplayRange
— Overlay display range
[0, 255]
(default) | 2-element numeric vector
Overlay display range, specified as a 2-element numeric vector of the form
[low high]
that specifies the minimum and maximum of the display
range. If you specify this property directly, the OverlayDisplayRangeMode
property value automatically changes
to "manual"
. If you do not specify the
OverlayDisplayRange
property value, the function automatically
scales the data based on the OverlayDisplayRangeMode
property
value. In this case, the OverlayDisplayRange
property value
automatically updates to reflect the current display range.
OverlayDisplayRangeMode
— Overlay display range mode
"8-bit"
(default) | "type-range"
| "data-range"
| "manual"
Overlay display range mode, specified as one of the options in the table.
Value | Description |
---|---|
"8-bit" | Set the overlay display range to [0 255] . |
"type-range" | Set the overlay display range equal to the data type range for
OverlayData . For example, if
OverlayData is of data type double ,
the display range is [0 1] . |
"data-range" | Set the display range equal to the data range of
OverlayData . |
"manual" | Manually set a fixed display range using the OverlayDisplayRange property. Specifying the
OverlayDisplayRange property automatically sets the
OverlayDisplayRangeMode to
"manual" . |
OverlayColormap
— Overlay colormap
n-by-3 numeric matrix
Overlay colormap, specified as an n-by-3 numeric matrix with
values in the range [0, 1]. The maximum number of colors n is 256.
You can specify the colormap as a numeric matrix directly, or as the name of predefined
colormap such as turbo
or parula
. For a complete
list of colormaps, see Colormaps.
This property affects the visualization only when the OverlayData
property is nonempty. The default colormap
maximizes color differences between adjacent colors in the colormap, which helps
visually distinguish between different values in a discrete label image. When displaying
continuous overlay data as a heatmap, consider specifying a colormap with gradual color
changes, such as turbo
or parula
.
The OverlayDisplayRange
property determines how values of
OverlayData
map to the colormap. Values less than or equal to the
minimum of the OverlayDisplayRange
map to the first color in
OverlayColormap
, and all values greater than or equal to the
maximum of the OverlayDisplayRange
map to the last color in
OverlayColormap
.
OverlayAlpha
— Uniform transparency value for overlay
0.2
(default) | numeric scalar | []
Uniform transparency value for the overlay image, specified as a numeric scalar in
the range [0, 1] or an empty array. Specify a numeric scalar to apply a uniform
transparency to all nonzero pixels in OverlayData
. Zero-valued pixels display fully
transparent.
To specify a nonuniform transparency, or to apply a uniform transparency to all
pixels including zero-valued pixels, specify the OverlayAlphamap
property. If you specify
OverlayAlphamap
, then this property automatically changes to an
empty matrix, []
.
OverlayAlphamap
— Nonuniform transparency map for overlay
n-element column vector | "linear"
| "quadratic"
| "cubic"
Nonuniform transparency map for the overlay image, specified as one of the values in
the table. Specify this property to apply a nonuniform transparency to pixels in
OverlayData
. By default, OverlayAlphamap
is a 256-element column vector that reflects the current OverlayAlpha
value.
The OverlayDisplayRange
property determines how values of
OverlayData
map to the transparency range. Values less than or
equal to the minimum of the OverlayDisplayRange
map to the first
value of the transparency range, and all values greater than or equal to the maximum of
the OverlayDisplayRange
map to the last value of the transparency
range.
Value | Description |
---|---|
n-element column vector with values in the range [0, 1] | Values in OverlayData map linearly to the
transparency values in OverlayAlphamap . |
| Values in OverlayData map linearly to transparencies
in the range [0, 1]. |
| Values in OverlayData map quadratically to
transparencies in the range [0, 1]. Use this option to apply a more rapid
change in transparency between low and high values of
OverlayData compared to
"linear" . |
| Values in OverlayData map cubically to
transparencies in the range [0, 1]. Use this option to apply the most rapid
change in transparency between low and high values of
OverlayData . |
OverlayRenderingStyle
— Overlay rendering style
"LabelOverlay"
(default) | "VolumeOverlay"
| "GradientOverlay"
Overlay rendering style, specified as one of the values in the table.
Value | Description |
---|---|
"LabelOverlay" | View the overlay based on the color and transparency of each labeled region. Use this rendering style to visualize ordinal data like binary or semantic segmentation results on top of your data. |
"VolumeOverlay" | View the overlay based on the specified color and transparency for each voxel. |
"GradientOverlay" | View the overlay based on the color and transparency for each voxel with an additional transparency applied based on the difference between the voxel and the previous voxel along the viewing ray. |
Version History
Introduced in R2023aR2024b: Specify transparency map
For easier specification of transparency maps, the new options
"linear"
,"quadratic"
, and"cubic"
have been added for theAlphamap
andOverlayAlphamap
properties.Specify a uniform transparency for all nonzero label values while hiding background labels by using the new
OverlayAlpha
property.
R2024b: Specify data and overlay display range
For consistency with other graphics objects in the toolbox, the
DataLimits
andDataLimitsMode
properties are now calledDisplayRange
andDisplayRangeMode
, respectively. There are no plans to remove support for existing references to the old names.For more clarity and granular control, in the renamed
DisplayRangeMode
property, the"auto"
option has been replaced with the new options"type-range"
,"data-range"
,"10-bit"
, and"12-bit"
. If you specify theDisplayRangeMode
as"auto"
, the software returns an error. To update existing code, replace"auto"
with one of the new values.For consistency with other graphics objects in the toolbox, the
OverlayDataLimits
andOverlayDataLimitsMode
properties are now calledOverlayDisplayRange
andOverlayDisplayRangeMode
, respectively. There are no plans to remove support to existing references to the old names.For more clarity and granular control, in the renamed
OverlayDisplayRangeMode
property, the"auto"
option has been replaced with the new options"8-bit"
,"type-range"
, and"data-range"
. If you specify theOverlayDisplayRangeMode
as"auto"
, the software returns an error. To update existing code, replace"auto"
with one of the new values.To improve support for labeling workflows, the default
OverlayColormap
property value has changed fromturbo(256)
to a custom colormap that maximizes differences between adjacent colors.To apply a uniform transparency while hiding background labels, the new
OverlayAlpha
property is recommended over theOverlayThreshold
property. There are no plans to remove support for existing instances ofOverlayThreshold
.
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