WARNING
This is a draft under the review by the BBMRI-ERIC Management Committee.
Definition
Scanning, file and annotation attributes: File Attributes: Cover various aspects related to file metadata in the context of image files and their associated data.
| Attribute Code | Attribute Name | Description | Data type | Allowed values | Constraints | Cardinality |
|---|---|---|---|---|---|---|
| MIABIS-DIGITALPATHOLOGYFILE-01 | File Identifier | A unique identifier of an image file | String | An ID as a free-text string | none | 1:1 |
| MIABIS-DIGITALPATHOLOGYFILE-02 | File Format | The image file format type | Ennumerated Values | svs, tif, tiff, dcm, vms, vmu, ndpi, scn, mrxs, svslide, bif,other (the value is known but cannot be classified into any of the predefined categories), NULL (the value is unknown) | none | 1:1 |
| MIABIS-DIGITALPATHOLOGYFILE-03 | File Size | The size of an image file in Bytes | Integer | none | 1:1 | |
| MIABIS-DIGITALPATHOLOGYFILE-04 | Image Width | Number of pixels in a row | Integer | none | 1:1 | |
| MIABIS-DIGITALPATHOLOGYFILE-05 | Image Height | Number of rows | Integer | none | 1:1 | |
| MIABIS-DIGITALPATHOLOGYFILE-06 | Image Depth | Number of layers in an image. This is particularly relevant to the Z-stacking method used. | Integer | For the single or extended Z-stacking method, the image depth is = 1; For the multiple Z-stacking method, the image depth is > 1 | 0:1 | |
| MIABIS-DIGITALPATHOLOGYFILE-07 | Number of Channels | Depth of data contained within a pixel | Integer | none | 0:1 | |
| MIABIS-DIGITALPATHOLOGYFILE-08 | Channel Resolution | Resolution of the image channels in bits | Integer | Array of Numbers | none | 1:1 |
| MIABIS-DIGITALPATHOLOGYFILE-09 | Color Space | Color Space refers to the mapping of image channels to a specific model that defines the range of colors, or color gamut, that can be created by combining these channels. Additional information, such as transparency maps, and annotations are not considered in the color space. | Ennumerated Values | grey, RGB, lab, HSV, multispectral (the channels can be mapped to a specific light spectrum), multiplex (the channels are abstract information layers), other, NULL | none | 1:1 |
| MIABIS-DIGITALPATHOLOGYFILE-10 | Color (ICC) Profile | Color profile of an image (acquisition device) | Ennumerated Values | Controlled Value Set of color profiles | It’s recommended that the color profile is specified, e.g. sRGB or Gray Gamma 1.8/2.2, GSDF, etc | 1:1 |
| MIABIS-DIGITALPATHOLOGYFILE-11 | Compression Method | Compression method applied | Ennumerated Values | The value should be taken whenever possible from the Lossy Image Compression Method (0028,2114) | none | 1:1 |
| MIABIS-DIGITALPATHOLOGYFILE-12 | Compression Quality Level | Compression quality level | Decimal | none | 1:1 | |
| MIABIS-DIGITALPATHOLOGYFILE-13 | Pyramid Levels | The number of specific resolution levels of an image pyramid | Integer | none | 0:1 | |
| MIABIS-DIGITALPATHOLOGYFILE-14 | Preview Available | Indicates whether a preview image is available in the image file. A preview image captures the entire area of the container, typically at a lower resolution. It is not meant to be an algorithmically downsampled version of the high-resolution scan. | Ennumerated Values | yes, no, NULL (the value is unknown) | none | 1:1 |
| MIABIS-DIGITALPATHOLOGYFILE-15 | Label Available | Indicates if a label image is available in the image file | Ennumerated Values | yes, no, NULL (the value is unknown) | none | 1:1 |
| MIABIS-DIGITALPATHOLOGYFILE-16 | Annotations Available | Indicates whether an image file contains digital annotation layers. This does not cover markers or handmade annotations on coverslips of glass slides. | Ennumerated Values | yes, no, NULL (the value is unknown) | none | 1:1 |
| MIABIS-DIGITALPATHOLOGYFILE-17 | Personal Information | Specifies if an image file includes patient-identifiable information. This includes both the image metadata and the data within all image pixels, such as high-resolution scans, preview images, and label images (with burned-in information). The determination of what constitutes identifiable information is at the discretion of the metadata creator. | Ennumerated Values | yes, no, NULL (the value is unknown) | none | 1:1 |