{"EMPIAR-10982":{"imagesets":[{"segmentations":[],"name":"C. elegans benchmark volume of instance segmentation of mitochondria: grayscale image file + label map file","directory":"data/mito_benchmarks/c_elegans","category":"micrographs - multiframe","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":1,"frames_per_image":256,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":240.0,"pixel_height":240.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"","image_width":"256","image_height":"256"},{"segmentations":[],"name":"Fly brain benchmark volume of instance segmentation of mitochondria: grayscale image file + label map file","directory":"data/mito_benchmarks/fly_brain","category":"micrographs - multiframe","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":1,"frames_per_image":256,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":120.0,"pixel_height":120.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"","image_width":"255","image_height":"255"},{"segmentations":[],"name":"Glycolytic muscle benchmark volume of instance segmentation of mitochondria: grayscale image file + label map file","directory":"data/mito_benchmarks/glycolytic_muscle","category":"micrographs - single frame","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":1,"frames_per_image":302,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":180.0,"pixel_height":180.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"","image_width":"765","image_height":"383"},{"segmentations":[],"name":"HeLa cell benchmark volume of instance segmentation of mitochondria: grayscale image file + label map file","directory":"data/mito_benchmarks/hela_cell","category":"micrographs - multiframe","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":1,"frames_per_image":256,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":150.0,"pixel_height":150.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"","image_width":"256","image_height":"256"},{"segmentations":[],"name":"Lucchi++ neuronal benchmark volume of instance segmentation of mitochondria: grayscale image file + label map file","directory":"data/mito_benchmarks/lucchi_pp","category":"micrographs - multiframe","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":1,"frames_per_image":165,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":50.0,"pixel_height":50.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"","image_width":"1024","image_height":"768"},{"segmentations":[],"name":"Salivary gland (rat) benchmark volume of instance segmentation of mitochondria: grayscale image file + label map file","directory":"data/mito_benchmarks/salivary_gland","category":"micrographs - multiframe","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":1,"frames_per_image":1260,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":150.0,"pixel_height":150.0,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"","image_width":"1200","image_height":"1081"},{"segmentations":[],"name":"TEM 100 image benchmark dataset of instance segmentation of mitochondria: grayscale image file + label map file","directory":"data/tem_benchmark","category":"micrographs - multiframe","header_format":"TIFF","data_format":"TIFF","num_images_or_tilt_series":100,"frames_per_image":1,"frame_range_min":null,"frame_range_max":null,"voxel_type":"UNSIGNED BYTE","pixel_width":null,"pixel_height":null,"micrographs_file_pattern":"","picked_particles_file_pattern":"","picked_particles_directory":"","details":"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","image_width":"1024","image_height":"1024"}],"workflow_file":null,"grant_references":[],"version_history":[],"title":"Seven benchmark datasets of instance segmentation of mitochondria: 6 diverse volume EM + 1 TEM (100 images) datasets","principal_investigator":[{"author_orcid":"0000-0001-7982-6494","middle_name":null,"organization":"Frederick National Laboratory & National Cancer Institute, NIH","street":null,"town_or_city":"Frederick","state_or_province":"MD","post_or_zip":"21701","telephone":null,"fax":null,"first_name":"Kedar","last_name":"Narayan","email":"narayank [at] mail.nih.gov","country":"United States","entry":"EMPIAR-10982"}],"status":"REL","deposition_date":"2022-03-11","release_date":"2022-03-15","obsolete_date":null,"update_date":"2022-10-04","corresponding_author":{"author":{"author_orcid":"0000-0001-7982-6494","middle_name":null,"organization":"Frederick National Laboratory & National Cancer Institute, NIH","street":null,"town_or_city":"Frederick","state_or_province":"MD","post_or_zip":"21701","first_name":"Kedar","last_name":"Narayan","country":"United States"}},"authors":[{"author":{"name":"Narayan K","author_orcid":"0000-0001-7982-6494"}},{"author":{"name":"Conrad RW","author_orcid":null}}],"cross_references":[],"biostudies_references":[],"idr_references":[],"empiar_references":[],"citation":[{"authors":[{"name":"Narayan K","author_orcid":"0000-0001-7982-6494"},{"name":"Conrad RW","author_orcid":null}],"editors":[],"published":false,"j_or_nj_citation":false,"title":"Six benchmark volumes of instance segmentation of mitochondria from diverse volume EM datasets","volume":null,"country":"","first_page":null,"last_page":null,"year":null,"language":null,"doi":null,"pubmedid":null,"details":"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.","book_chapter_title":null,"publisher":"","publication_location":"","journal":null,"journal_abbreviation":null,"issue":null,"preprint":null}],"dataset_size":"4.1 GB","experiment_type":"FIB-SEM","scale":"cell","entry_doi":"10.6019/EMPIAR-10982"}}