This repository contains the data used for producing the results in the SPIE16 paper " used in the SPIE16 Paper" (9785-038).
There are two alternative version. In volumes_json you can find all Volumes as JavaScript Object Notation (JSON) encoded deep nested data structure including Cliques and Annotations. These contain a lot of fields not necessarily needed by 3rd parties. A subset of relevant fields and individual tables can be found in the *.csv files (comma separated values) or alternatively in the *.json files. There is one for table for each: Volumes, Cliques, Annotations and Contours. Note that some fields are encoded as lists of strings. If you load the csv-file in Excel, some rows containing long strings are not read correctly.
volumes.csv / volumes.json
| Field | Description |
|---|---|
| PatientID | the unique LIDC/IDRI PatientID |
| Dataset | "Training", "Verify" or "Test" (Verify is also used for Training) |
| SeriesUID | DICOM tag SeriesInstanceUID |
| StudyUID | DICOM tag StudyInstanceUID |
| ImageType | list of DICOM ImageType tags |
| FrameOfReferenceUID | DICOM tag FrameOfReferenceUID |
| XRayTubeCurrent | DICOM tag XRayTubeCurrent |
| KVP | DICOM tag KVP |
| ImageFileNames | list of original dicom file-names used in this volume (in order) |
| ImageUIDs | list of dicom SOPInstanceUID of each slice |
annotations.csv / annotations.json
| Field | Description |
|---|---|
| AnnotationID | the unique (internal) AnnotationID |
| Primitive | 0 for Nodules and NonNodules, 5 for NoduleVolume |
| AnnotationData | either bounding box for NoduleVolume or position and radius for Nodule/ NonNodule (DICOM Patient Coordiantes) |
| VolumeID | the unique VolumeID |
| HUMax | maximum Hounsfield unit in Annotation |
| HUMean | mean Hounsfield unit in Annotation |
| HUMin | minimal Hounsfield unit in Annotation |
| HUStd | standard deviation of Hounsfield units in Annotation |
| Label | a label prefixed by the type NoduleVolume, Nodule or NonNodule, followed by the original label from LIDC/IDRI XML data |
| AnnotationsIncluded | for NoduleVolume, AnnotationIDs of contours that are included in this NoduleVolume |
| AnnotationsExcluded | for NoduleVolume, AnnotationIDs of contours that are excluded in this NoduleVolume |
contours.csv / contours.json
| Field | Description |
|---|---|
| AnnotationID | the unique (internal) AnnotationID |
| Primitive | 2 for contours (input to NoduleVolumes) |
| AnnotationData | the triplets of contour coordinates in DICOM patient coordiantes |
| VolumeID | the unique VolumeID |
| ImageUID | dicom SOPInstanceUID of the corresponding slice |
| SlicePosition | the slice number within the volume (starting from 0) |
| Label | a label prefixed by the type NoduleContour, followed by the original label from LIDC/IDRI XML data |
cliques.csv / cliques.json
| Field | Description |
|---|---|
| CliqueID | the unique CliqueID |
| PatientID | the unique LIDC/IDRI PatientID |
| VolumeID | the unique VolumeID (SeriesInstanceUID plus a number to force uniqueness within dicom series) |
| AnnoCount | number of Annotations in the Clique |
| NoduleCount | number of Annotations labeled as "Nodule < 3mm" in this Clique |
| NoduleVolumeCount | number of Annotations labeled as "Nodule >= 3mm" in this Clique |
| NonNoduleCount | number of Annotions labeled as "NonNodule" in this Clique |
| Annotations | list of AnnotationIDs as cross reqference to Annotation table |
| DiameterMean | mean diameter of annotations in this clique |
| Diameters | list of diameters |
| DiceMean | mean of all pairwise dice coefficients |
| Dices | all pairwise dice coefficients |
| HUMax | maximum Hounsfield unit in Clique |
| HUMean | mean Hounsfield unit in Clique |
| HUMin | minimal Hounsfield unit in Clique |
| HUStd | standard deviation of Hounsfield units in Clique |
| VolumeMean | mean of all Annotation's volumes in |
| Volumes | the Annotation's volumes in |