This thread is used to collect suggestions for new annotated datasets to be included to BIAFLOWS. Please refer to BIAFLOWS call for contribution thread for details.
I just found this one: 3D-ZeF: A 3D Zebrafish Tracking Benchmark Dataset: RGB 3D multiple object tracking dataset
Also three 2D landmark detection datasets here with code: ** Landmark detection in 2D bioimages for geometric morphometrics: a multi-resolution tree-based approach**
I’d like to contribute with a set of manually annotated small extracellular vesicles in 2D Transmission Electron Microscopy (2D) images. The annotations are for instance segmentation.
The dataset is provided at the CBIA of Massaryk University (https://cbia.fi.muni.cz/research/segmentation/fru-net) and described at:
Gómez-de-Mariscal E. et al., Deep-Learning-Based Segmentation of Small Extracellular Vesicles in Transmission Electron Microscopy Images. Scientific Reports, 9(1):13211, 2019.
Kotrbová, A. et al . TEM ExosomeAnalyzer: a computer-assisted software tool for quantitative evaluation of extracellular vesicles in transmission electron microscopy images. J. Extracell. Vesicles 8 , 1560808, (2019).
I’d like to make a contribution with a set of manually annotated images of leukocytes during two stages of adhesion in 2D flow assays. The original image processing workflow was designed for spot/object counting with object segmentation still in development.
The dataset will be made available at the following GitLab: spillf-leukocytes-image-analysis / CASTLE and is described in: Gilbert et al., CASTLE: cell adhesion with supervised training and learning environment. J. Phys. D: Appl. Phys. 53 424002, (2020).