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Laryngeal Endoscopic Dataset

5367583
Tagmedical
Tasksemantic segmentation
Release YearMade in 2020
LicenseCC BY 4.0
Download202 MB

Introduction #

Released 2020-09-21 ·Max-Heinrich Laves, Jens Bicker, Lüder A. Kahrset al.

The authors of the Dataset of Laryngeal Endoscopic Images for Semantic Segmentation assessed existing segmentation methods. In medical image analysis, the automated segmentation of anatomical structures is crucial for autonomous diagnosis and various computer-aided interventions, including those involving robots. The examination of laryngeal endoscopic images holds the promise of early pathology detection. Given that vocal folds, the primary functional organ within the larynx, are delicate structures critical for surgery, computer vision can play a pivotal role in assisting physicians in preserving or restoring voice functionality. This synergy involves combining augmented reality, robotics, laser surgery, and image processing methods. Notably, the segmentation of laryngeal images stands out as a key component for the effective implementation of such a comprehensive system.

Dataset description

The dataset contain 536 manually segmented color images of the larynx during two different resection surgeries with a resolution of 512×512 pixels. The images have been captured with a stereo endoscope (VSii, Visionsense, Petach-Tikva, Israel). They are categorized in the 7 different classes: void, vocal folds, other tissue, glottal space, pathology, surgical tool.

image

First row: Examples from vocal folds dataset. Second row: Manually segmented ground truth label maps with classes vocal folds (red), other tissue (blue), glottal space (green), pathology (purple), surgical tool (orange), intubation (yellow) and void (gray).

The dataset consists of 5 different sequences from two patients. The sequences have following characteristics:

  • SEQ1: pre-operative with clearly visible tumor on vocal fold, changes in translation, rotation, scale, no instruments visible, without intubation
  • SEQ2: pre-operative with clearly visible tumor, visible instruments, changes in translation and scale, with intubation
  • SEQ3–4: post-operative with removed tumor, damaged tissue, changes in translation and scale, with intubation
  • SEQ5–7: pre-operative with instruments manipulating and grasping the vocal folds, changes in translation and scale, with intubation
  • SEQ8: post-operative with blood on vocal folds, instruments and surgical dressing, with intubation

Subsequent images have a temporal contiguity as they are sampled uniformly from videos. To reduce inter-frame correlation, images were extracted from the original videos only once per second. In the comparative study SEQ4–SEQ6 were not used due to high similarity to SEQ3 and SEQ7 respectively, as they do not offer any additional variance to the dataset. Segmentations have been manually created on a pen display (DTK-2241, K. K. Wacom).

image

Number of annotated pixels per class in the dataset.

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Dataset LinkHomepageDataset LinkResearch Paper

Summary #

A Dataset of Laryngeal Endoscopic Images for Semantic Segmentation is a dataset for a semantic segmentation task. It is used in the medical and robotics industries.

The dataset consists of 536 images with 2939 labeled objects belonging to 7 different classes including vocal folds, void, glottal space, and other: other tissue, intubation, surgical tool, and pathology.

Images in the Laryngeal Endoscopic dataset have . All images are labeled (i.e. with annotations). There are no pre-defined train/val/test splits in the dataset. Alternatively, the dataset could be split into 6 sequences: seq8 (186 images), seq7 (122 images), seq4 (66 images), seq6 (44 images), seq3 (26 images), and seq5 (26 images). Additionally, every image marked with the patient tag (1 or 2). The dataset was released in 2020 by the Institute of Mechatronic Systems, Hannover, Germany.

Dataset Poster

Explore #

Laryngeal Endoscopic dataset has 536 images. Click on one of the examples below or open "Explore" tool anytime you need to view dataset images with annotations. This tool has extended visualization capabilities like zoom, translation, objects table, custom filters and more. Hover the mouse over the images to hide or show annotations.

OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
OpenSample annotation mask from Laryngeal EndoscopicSample image from Laryngeal Endoscopic
👀
Have a look at 536 images
View images along with annotations and tags, search and filter by various parameters

Class balance #

There are 7 annotation classes in the dataset. Find the general statistics and balances for every class in the table below. Click any row to preview images that have labels of the selected class. Sort by column to find the most rare or prevalent classes.

Search
Rows 1-7 of 7
Class
Images
Objects
Count on image
average
Area on image
average
vocal folds
mask
533
533
1
35.57%
void
mask
531
531
1
3.39%
glottal space
mask
529
529
1
8.15%
other tissue
mask
482
482
1
30.82%
intubation
mask
433
433
1
6.64%
surgical tool
mask
373
373
1
28.6%
pathology
mask
58
58
1
2.21%

Co-occurrence matrix #

Co-occurrence matrix is an extremely valuable tool that shows you the images for every pair of classes: how many images have objects of both classes at the same time. If you click any cell, you will see those images. We added the tooltip with an explanation for every cell for your convenience, just hover the mouse over a cell to preview the description.

Images #

Explore every single image in the dataset with respect to the number of annotations of each class it has. Click a row to preview selected image. Sort by any column to find anomalies and edge cases. Use horizontal scroll if the table has many columns for a large number of classes in the dataset.

Object distribution #

Interactive heatmap chart for every class with object distribution shows how many images are in the dataset with a certain number of objects of a specific class. Users can click cell and see the list of all corresponding images.

Class sizes #

The table below gives various size properties of objects for every class. Click a row to see the image with annotations of the selected class. Sort columns to find classes with the smallest or largest objects or understand the size differences between classes.

Search
Rows 1-7 of 7
Class
Object count
Avg area
Max area
Min area
Min height
Min height
Max height
Max height
Avg height
Avg height
Min width
Min width
Max width
Max width
vocal folds
mask
533
35.57%
95.9%
2.43%
181px
35.35%
512px
100%
426px
83.29%
60px
11.72%
512px
100%
void
mask
531
3.39%
33.42%
0%
1px
0.2%
512px
100%
376px
73.52%
1px
0.2%
512px
100%
glottal space
mask
529
8.15%
92.7%
0.05%
4px
0.78%
512px
100%
245px
47.9%
13px
2.54%
512px
100%
other tissue
mask
482
30.82%
67.41%
0.26%
38px
7.42%
512px
100%
420px
82.08%
28px
5.47%
512px
100%
intubation
mask
433
6.64%
33.31%
0.09%
6px
1.17%
512px
100%
175px
34.13%
27px
5.27%
512px
100%
surgical tool
mask
373
28.6%
88.48%
0.1%
19px
3.71%
512px
100%
383px
74.83%
23px
4.49%
512px
100%
pathology
mask
58
2.22%
11.09%
0.08%
19px
3.71%
270px
52.73%
99px
19.24%
9px
1.76%
168px
32.81%

Spatial Heatmap #

The heatmaps below give the spatial distributions of all objects for every class. These visualizations provide insights into the most probable and rare object locations on the image. It helps analyze objects' placements in a dataset.

Spatial Heatmap

Objects #

Table contains all 2939 objects. Click a row to preview an image with annotations, and use search or pagination to navigate. Sort columns to find outliers in the dataset.

Search
Rows 1-10 of 2939
Object ID
Class
Image name
click row to open
Image size
height x width
Height
Height
Width
Width
Area
1
void
mask
seq6_0183_l.png
512 x 512
512px
100%
512px
100%
13.06%
2
vocal folds
mask
seq6_0183_l.png
512 x 512
464px
90.62%
458px
89.45%
43.2%
3
other tissue
mask
seq6_0183_l.png
512 x 512
512px
100%
512px
100%
25.58%
4
glottal space
mask
seq6_0183_l.png
512 x 512
291px
56.84%
152px
29.69%
10.4%
5
intubation
mask
seq6_0183_l.png
512 x 512
154px
30.08%
166px
32.42%
7.76%
6
void
mask
seq8_1085.png
512 x 512
399px
77.93%
354px
69.14%
0.01%
7
vocal folds
mask
seq8_1085.png
512 x 512
471px
91.99%
402px
78.52%
39.5%
8
other tissue
mask
seq8_1085.png
512 x 512
512px
100%
512px
100%
46.04%
9
glottal space
mask
seq8_1085.png
512 x 512
74px
14.45%
72px
14.06%
1.05%
10
surgical tool
mask
seq8_1085.png
512 x 512
248px
48.44%
122px
23.83%
7.89%

License #

A Dataset of Laryngeal Endoscopic Images for Semantic Segmentation is under CC BY 4.0 license.

Source

Citation #

If you make use of the Laryngeal Endoscopic data, please cite the following reference:

@dataset{Laryngeal Endoscopic,
  author={Max-Heinrich Laves and Jens Bicker and Lüder A. Kahrs and Tobias Ortmaier},
  title={A Dataset of Laryngeal Endoscopic Images for Semantic Segmentation},
  year={2020},
  url={https://github.com/imesluh/vocalfolds}
}

Source

If you are happy with Dataset Ninja and use provided visualizations and tools in your work, please cite us:

@misc{ visualization-tools-for-vocalfolds-dataset,
  title = { Visualization Tools for Laryngeal Endoscopic Dataset },
  type = { Computer Vision Tools },
  author = { Dataset Ninja },
  howpublished = { \url{ https://datasetninja.com/vocalfolds } },
  url = { https://datasetninja.com/vocalfolds },
  journal = { Dataset Ninja },
  publisher = { Dataset Ninja },
  year = { 2024 },
  month = { mar },
  note = { visited on 2024-03-05 },
}

Download #

Dataset Laryngeal Endoscopic can be downloaded in Supervisely format:

As an alternative, it can be downloaded with dataset-tools package:

pip install --upgrade dataset-tools

… using following python code:

import dataset_tools as dtools

dtools.download(dataset='Laryngeal Endoscopic', dst_dir='~/dataset-ninja/')

Make sure not to overlook the python code example available on the Supervisely Developer Portal. It will give you a clear idea of how to effortlessly work with the downloaded dataset.

The data in original format can be downloaded here.

. . .

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