DICOM WG-26 Whole Slide Imaging Annotations Connectathon: Imaging Data Commons entry

This data descriptor contains DICOM Slide Microscopy (SM modality) images and DICOM 2D point and polygon Bulk Annotations (ANN modality) submitted by the Imaging Data Commons team as part of the participation in the 2024 DICOM Working Group 26 Annotations Connectathon (https://dicom-wg26-connectathons.github.io/2024-annotations/).

Detailed content of the descriptor is as follows:

Images correspond to 3 series selected from the DICOM-converted slides incuded in the TCGA-READ collection (originally shared in vendor-specific format in https://portal.gdc.cancer.gov/projects/TCGA-READ) and available from NCI Imaging Data Commons [1] at https://portal.imaging.datacommons.cancer.gov/explore/filters/?collection_id=tcga_read. Specifically, the following series are included, as defined by their `PatientID`, `StudyInstanceUID` and `SeriesInstanceUID` values. Each individual series contains multiple files corresponding to different resolution layers, shared as zip files. 

`TCGA-AF-2687.zip`: series `1.3.6.1.4.1.5962.99.1.2251401802.152239158.1638633974346.2.0` https://viewer.imaging.datacommons.cancer.gov/slim/studies/2.25.213661963103110408605329613498871186883/series/1.3.6.1.4.1.5962.99.1.2251401802.152239158.1638633974346.2.0

`TCGA-AF-2689.zip`: series `1.3.6.1.4.1.5962.99.1.2259090539.712983657.1638641663083.2.0` https://viewer.imaging.datacommons.cancer.gov/slim/studies/2.25.312916405820155829215771528638931942827/series/1.3.6.1.4.1.5962.99.1.2259090539.712983657.1638641663083.2.0

`TCGA-AF-2690.zip`: series `1.3.6.1.4.1.5962.99.1.2247972296.1080138101.1638630544840.2.0` https://viewer.imaging.datacommons.cancer.gov/slim/studies/2.25.158926540358526295486644564130790202309/series/1.3.6.1.4.1.5962.99.1.2247972296.1080138101.1638630544840.2.0

`polygon_annotations.zip`: 2D polygon annotations of the boundary of the cell nuclei. Conversion into DICOM ANN was performed from the original content shared in [2].

`point_annotations.zip`: 2D point annotations corresponding to the centroids of the cell nuclei defined in the prior polygon annotations.

`rectangle_annotations.zip`: 2D rectangle annotations corresponding to the axis-aligned bounding box of the cell nuclei defined in the prior polygon annotations.

`ellipse_annotations.zip`: 2D ellipse annotations corresponding to the ellipse fit to the cell nuclei defined in the prior polygon annotations.

`screenshots.pdf`: screenshots demonstrating visualization of the included annotations in the open source Slim viewer (https://github.com/ImagingDataCommons/slim) (note these visualizations were produced using a development branch of the software)

`run_verify.sh`: script that was used to run `dciodvfy` validator and save validation results.

Zip files with the annotations also include the output of the `dciodvfy` validator (https://dclunie.com/dicom3tools/dciodvfy.html) version `20240227102104` for each of the files.