Slice Thickness Attribute
| Tag | (0018,0050) |
|---|---|
| Type | Conditionally Required (1C) |
| Keyword | SliceThickness |
| Value Multiplicity | 1 |
| Value Representation | Decimal String (DS) |
| Example Values |
|
Nominal reconstructed slice thickness (for tomographic imaging) or depth of field (for optical non-tomographic imaging), in mm.
See Section C.7.6.16.2.3.1 for further explanation.
Note
Depth of field may be an extended depth of field created by focus stacking (see Section C.8.12.4).
Required if:
-
Volumetric Properties (0008,9206) is VOLUME or SAMPLED, and Image Type (0008,0008) Value 3 is not LABEL or OVERVIEW, or
-
SOP Class UID is Segmentation Storage ("1.2.840.10008.5.1.4.1.1.66.4") and Frame of Reference UID (0020,0052) is present, or
-
SOP Class UID is Ophthalmic Tomography Image Storage ("1.2.840.10008.5.1.4.1.1.77.1.5.4") and Ophthalmic Volumetric Properties Flag (0022,1622) is YES, or
-
SOP Class UID is Ophthalmic Optical Coherence Tomography B-scan Volume Analysis Storage ("1.2.840.10008.5.1.4.1.1.77.1.5.8").
May be present otherwise, if
-
SOP Class UID is not Enhanced RT Image ("1.2.840.10008.5.1.4.1.1.481.23"), and
-
SOP Class UID is not Enhanced Continuous RT Image ("1.2.840.10008.5.1.4.1.1.481.24").
Note
Part of the Pixel Measures Functional Group Macro with usage: M
Section C.7.6.16.2.3.1
C.7.6.16.2.3.1 Position and Orientation for SAMPLED Frames
In the case of Volumetric Properties (0008,9206) having a value of SAMPLED, Image Position (0020,0032), Image Orientation (0020,0037) and Slice Thickness (0018,0050) shall represent the volume from which the frame was derived based on the orientation of the sampling performed.
Note
For example in the case of MAX_IP:
The Image Orientation shall be the direction of the ray used for projection of the center of the plane.
The image position shall contain the x, y, and z coordinates of the intersection of the mid-plane of the sampled volume with the ray used to project the upper left hand corner of the frame.
The Slice Thickness shall contain the distance that the ray used for projection of the center of the plane traveled through the volume.
Section C.8.12.4
C.8.12.4 Whole Slide Microscopy Image Module
Table C.8.12.4-1 specifies the Attributes of the Whole Slide Microscopy Image Module.
Table C.8.12.4-1. Whole Slide Microscopy Image Module Attributes
|
Attribute Name |
Tag |
Type |
Attribute Description |
|---|---|---|---|
|
Image Type |
(0008,0008) |
1 |
Image identification characteristics. See Section C.8.12.4.1.1 for specialization. |
|
Imaged Volume Width |
(0048,0001) |
1C |
Width of total imaged volume (distance in the direction of rows in each frame) in mm. See Section C.8.12.4.1.2 Required if Image Type (0008,0008) Value 3 is VOLUME. May be present otherwise. |
|
Imaged Volume Height |
(0048,0002) |
1C |
Height of total imaged volume (distance in the direction of columns in each frame) in mm. See Section C.8.12.4.1.2 Required if Image Type (0008,0008) Value 3 is VOLUME. May be present otherwise. |
|
Imaged Volume Depth |
(0048,0003) |
1C |
Depth of total imaged volume (distance in the Z direction of focal planes) in µm. See Section C.8.12.4.1.2 Required if Image Type (0008,0008) Value 3 is VOLUME. May be present otherwise. |
|
Samples Per Pixel |
(0028,0002) |
1 |
Number of samples (color planes) per frame in this image. Enumerated Values:
See Section C.8.12.4.1.5 for further explanation. |
|
Photometric Interpretation |
(0028,0004) |
1 |
Specifies the intended interpretation of the pixel data. See Section C.8.12.4.1.5 for Enumerated Values. |
|
Planar Configuration |
(0028,0006) |
1C |
Indicates whether the pixel data are encoded color-by-plane or color-by-pixel. Required if Samples per Pixel (0028,0002) has a value greater than 1. Enumerated Values:
|
|
Number of Frames |
(0028,0008) |
1 |
Number of frames in a multi-frame image. Enumerated Values if Image Type (0008,0008) Value 3 is THUMBNAIL, LABEL or OVERVIEW:
NoteThis Enumerated Value of 1 previously applied to Image Type (0008,0008) Value 3 of LOCALIZER, which has been retired. See PS3.3-2021c. |
|
Bits Allocated |
(0028,0100) |
1 |
Number of bits allocated for each pixel sample. Enumerated Values:
|
|
Bits Stored |
(0028,0101) |
1 |
Number of bits stored for each pixel sample. Shall be equal to Bits Allocated (0028,0100). |
|
High Bit |
(0028,0102) |
1 |
Most significant bit for pixel sample data. High Bit (0028,0102) shall be one less than Bits Stored (0028,0101). |
|
Pixel Representation |
(0028,0103) |
1 |
Data representation of pixel samples. Enumerated Values:
|
|
Acquisition DateTime |
(0008,002A) |
1 |
The date and time that the acquisition of data that resulted in this image started. |
|
Acquisition Duration |
(0018,9073) |
3 |
Duration of the image acquisition in seconds. |
|
Lossy Image Compression |
(0028,2110) |
1 |
Specifies whether an Image has undergone lossy compression (at a point in its lifetime). Enumerated Values:
Once this value has been set to "01" it shall not be reset. |
|
Lossy Image Compression Ratio |
(0028,2112) |
1C |
Describes the approximate lossy compression ratio(s) that have been applied to this image. Required if Lossy Image Compression (0028,2110) is "01". |
|
Lossy Image Compression Method |
(0028,2114) |
1C |
A label for the lossy compression method(s) that have been applied to this image. Required if Lossy Image Compression (0028,2110) is "01". |
|
Presentation LUT Shape |
(2050,0020) |
1C |
Specifies an identity transformation for the Presentation LUT, such that the output of all grayscale transformations defined in the IOD containing this Module are defined to be P-Values. Enumerated Values:
Required if Photometric Interpretation (0028,0004) is MONOCHROME2. |
|
Rescale Intercept |
(0028,1052) |
1C |
The value b in relationship between stored values (SV) and the output units. Output units = m*SV + b. Required if Photometric Interpretation (0028,0004) is MONOCHROME2. Enumerated Values:
|
|
Rescale Slope |
(0028,1053) |
1C |
m in the equation specified by Rescale Intercept (0028,1052). Required if Photometric Interpretation (0028,0004) is MONOCHROME2. Enumerated Values:
|
|
Volumetric Properties |
(0008,9206) |
1 |
Indication if geometric manipulations are possible with frames in the SOP Instance. See Section C.8.16.2.1.2. Enumerated Values:
|
|
Specimen Label in Image |
(0048,0010) |
1 |
Indicates whether the specimen label is captured in the image. Enumerated Values:
Shall be YES if Image Type (0008,0008) Value 3 is OVERVIEW or LABEL. Shall be NO if Image Type (0008,0008) Value 3 is THUMBNAIL or VOLUME. |
|
Burned In Annotation |
(0028,0301) |
1 |
Indicates whether or not image contains sufficient burned in annotation to identify the patient. Enumerated Values:
NoteIf Specimen Label in Image (0048,0010) value is YES, Burned In Annotation (0028,0301) might be NO if the label includes only a specimen identifier and not patient identifying data. |
|
Focus Method |
(0048,0011) |
1 |
Method of focusing image Enumerated Values:
|
|
Extended Depth of Field |
(0048,0012) |
1 |
Image pixels were created through combining of image acquisition at multiple focal planes (focus stacking). Enumerated Values:
|
|
Number of Focal Planes |
(0048,0013) |
1C |
Number of acquisition focal planes used for extended depth of field. Required if Extended Depth of Field (0048,0012) value is YES NoteTotal Pixel Matrix Focal Planes (0048,0303) describes the number of focal planes separately encoded, and is distinct from Number of Focal Planes (0048,0013), which describes in what manner different focal planes were combined into a single encoded plane (focus stacking). |
|
Distance Between Focal Planes |
(0048,0014) |
1C |
Distance between acquisition focal planes used for extended depth of field, in µm. Required if Extended Depth of Field (0048,0012) value is YES. NoteSpacing Between Slices (0018,0088) describes the spacing of focal planes separately encoded, and is distinct from Distance Between Focal Planes (0048,0014), which describes in what manner different focal planes were combined into a single encoded plane (focus stacking). |
|
Acquisition Device Processing Description |
(0018,1400) |
3 |
Description of visual processing performed on the image prior to exchange. Examples of this processing are: edge enhanced, gamma corrected, convolved (spatially filtered). |
|
Convolution Kernel |
(0018,1210) |
3 |
Label for convolution kernel used in acquisition device visual processing. |
|
Recommended Absent Pixel CIELab Value |
(0048,0015) |
3 |
A color value with which it is recommended to display the pixels of the Total Pixel Matrix that are not encoded. The units are specified in PCS-Values, and the value is encoded as CIELab. See Section C.10.7.1.1. |
C.8.12.4.1 Whole Slide Microscopy Image Module Attribute Descriptions
C.8.12.4.1.1 Image Type
Image Type (0008,0008) is specified to be Type 1 with the following constraints:
Value 1 shall have a value of ORIGINAL or DERIVED
Value 2 shall have a value of PRIMARY
Value 3 (Image Flavor) shall have the Defined Terms in Table C.8.12.4-2.
Table C.8.12.4-2. Whole Slide Microscopy Image Flavors
|
VOLUME |
Set of frames that define a regularly sampled volume; shall not include the label; may be used for each layer of a Multi-Resolution Pyramid. |
|
LABEL |
Purpose of image is to capture the slide label only; non-label area shall not be present; the label is shown in Figure C.8-16. |
|
OVERVIEW |
Purpose of image is to provide an overview of the entire glass slide; shall include at least part of the label, all of the specimen and the empty space that are shown in Figure C.8-16. NoteOne purpose of the OVERVIEW image is to allow visual quality control to assure that tissue fragments have not been omitted when selecting areas (manually or automatically) to digitize at high resolution. The OVERVIEW image is distinct from the lowest resolution VOLUME image(s) of Whole Slide Microscopy Image pyramids, and the THUMBNAIL image, neither of which includes the label. |
|
THUMBNAIL |
Purpose of image is to provide an overview of the specimen; shall not include the label; may be the apex (lowest resolution) layer of a Multi-Resolution Pyramid. |
Note
A Value 3 of LOCALIZER was previously defined, which triggered the mandatory inclusion of the retired Multi-Resolution Navigation Module (Retired). See PS3.3-2021c.
Value 4 (Derived Pixel) shall have the Defined Terms specified in Table C.8.12.4-3.
Table C.8.12.4-3. Whole Slide Microscopy Image Derived Pixels
|
NONE |
No derivation of pixels (original). |
|
RESAMPLED |
Pixels were derived by down sampling a higher resolution image. |
No additional values shall be present.
C.8.12.4.1.2 Imaged Volume Width, Height, Depth
The full physical extent of the whole slide image target volume is described in the Attributes Imaged Volume Width (0048,0001), Imaged Volume Height (0048,0002), and Imaged Volume Depth (0048,0003). These values reflect the maximum extent in these dimensions. There is no requirement that this entire extent is actually encoded in frames of the Image SOP Instance, unless Dimension Organization Type (0020,9311) is present with a value of TILED_FULL.
The value of Imaged Volume Depth (0048,0003) shall not be 0. If only a single focal plane is imaged, the Imaged Volume Depth may be the optical depth of field as encoded in Slice Thickness (0018,0050) of the Pixel Measures Functional Group (see Section C.7.6.16.2.1).
C.8.12.4.1.3 Total Pixel Matrix Columns, Rows, Focal Planes
C.8.12.4.1.4 Total Pixel Matrix Origin Sequence and Image Orientation (Slide)
C.8.12.4.1.5 Photometric Interpretation and Samples Per Pixel
See Section C.7.6.3.1.2.
Enumerated Values for Photometric Interpretation (0028,0004):
- MONOCHROME2
-
- RGB
-
- YBR_FULL_422
-
- YBR_ICT
-
- YBR_RCT
-
The value shall be appropriate to the compression Transfer Syntax used, if any, and shall be MONOCHROME2 or RGB for uncompressed or lossless compressed Transfer Syntaxes that do not have defined color space transformations, YBR_ICT or RGB for irreversible JPEG 2000 Transfer Syntaxes, YBR_RCT or RGB for reversible JPEG 2000 Transfer Syntaxes, and YBR_FULL_422 or RGB for JPEG lossy compressed Transfer Syntaxes.
Note
-
Future lossless and lossy Transfer Syntaxes may lead to the need for new definitions and choices for Photometric Interpretation. The Enumerated Values may therefore be extended with additional Photometric Interpretation values directly associated with new Transfer Syntaxes that are negotiated, and hence do not render existing implementations non-conformant.
-
Motion compression Transfer Syntaxes are not expected to be used for Whole Slide Imaging, so the use of YBR_PARTIAL_420 for MPEG2, MPEG-4 AVC/H.264 and HEVC/H.265 Transfer Syntaxes is not permitted.
-
The use of RGB with JPEG and JPEG 2000 is only intended to allow for conversion to DICOM of images from proprietary formats for which no color transformation from RGB to YBR was performed and the encoded components really are RGB. The value of Photometric Interpretation (0028,0004) describes what is actually encoded, so a value of RGB is not used when the compressed components are actually YBR.
Multi-spectral images may be encoded as a single wavelength band (color) in each frame using MONOCHROME2, or with up to three bands in each frame using one of the color Photometric Interpretations.
Enumerated Values for Samples per Pixel (0028,0002) when Photometric Interpretation (0028,0004) is MONOCHROME2:
- 1
-
Enumerated Values for Samples per Pixel (0028,0002) when Photometric Interpretation (0028,0004) is not MONOCHROME2:
- 3
-