REL 2022-03-11 2022-03-15 2022-10-04 Seven benchmark datasets of instance segmentation of mitochondria: 6 diverse volume EM + 1 TEM (100 images) datasets 0000-0001-7982-6494 Kedar Narayan Frederick National Laboratory & National Cancer Institute, NIH Frederick MD United States 21701 0000-0001-7982-6494 Kedar Narayan Frederick National Laboratory & National Cancer Institute, NIH Frederick MD United States 21701 Narayan K Conrad RW 4.1 10.6019/EMPIAR-10982 FIB-SEM cell Narayan K Conrad RW Six benchmark volumes of instance segmentation of mitochondria from diverse volume EM datasets
These six benchmarks were derived from volume EM reconstructions of C. elegans, Fly brain, HeLa cell, Glycolytic muscle, Salivary gland, and a known neuronal benchmark, Lucchi++ . The widely heterogenous mitochondria in these benchmarks together serve as a stringent evaluation of deep learning based, or other, segmentation approaches.
 C. elegans benchmark volume of instance segmentation of mitochondria: grayscale image file + label map file /data/mito_benchmarks/c_elegans micrographs - multiframe TIFF TIFF 1 256 UNSIGNED BYTE 256 240.0 256 240.0
Fly brain benchmark volume of instance segmentation of mitochondria: grayscale image file + label map file /data/mito_benchmarks/fly_brain micrographs - multiframe TIFF TIFF 1 256 UNSIGNED BYTE 255 120.0 255 120.0
Glycolytic muscle benchmark volume of instance segmentation of mitochondria: grayscale image file + label map file /data/mito_benchmarks/glycolytic_muscle micrographs - single frame TIFF TIFF 1 302 UNSIGNED BYTE 765 180.0 383 180.0
HeLa cell benchmark volume of instance segmentation of mitochondria: grayscale image file + label map file /data/mito_benchmarks/hela_cell micrographs - multiframe TIFF TIFF 1 256 UNSIGNED BYTE 256 150.0 256 150.0
Lucchi++ neuronal benchmark volume of instance segmentation of mitochondria: grayscale image file + label map file /data/mito_benchmarks/lucchi_pp micrographs - multiframe TIFF TIFF 1 165 UNSIGNED BYTE 1024 50.0 768 50.0
Salivary gland (rat) benchmark volume of instance segmentation of mitochondria: grayscale image file + label map file /data/mito_benchmarks/salivary_gland micrographs - multiframe TIFF TIFF 1 1260 UNSIGNED BYTE 1200 150.0 1081 150.0
TEM 100 image benchmark dataset of instance segmentation of mitochondria: grayscale image file + label map file /data/tem_benchmark micrographs - multiframe TIFF TIFF 100 1 UNSIGNED BYTE 1024 variable 1024 variable
100 TEM images of cellular features (most but not all images are 1024 x 1024, pixel size in low nm range) and corresponding 2D instance segmentation label maps of mitochondria from a variety of imaging projects. A .csv file of available metadata is also included