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Training and test images of live E. coli cells imaged under bright field for the task of segmentation. Additional information can be found on this github wiki. The example shows a bright field image of live E. coli cells and the manually annotated segmentation mask. Data type: Paired bright field and segmented mask images Microscopy data type: 2D bright field images recorded at 1 min interval Microscope: Nikon Eclipse Ti-E equipped with an Apo TIRF 1.49NA 100x oil immersion objective Cell type: E. coli MG1655 wild type strain (CGSC #6300). File format: .tif (8-bit) Image size: 1024 x 1024 px�� (79 nm / pixel), 19/15 individual frames (training/test dataset) 1024 x 1024 px�� (79 nm / pixel), 9 regions of interest with 80 frames @ 1 min time interval (live-cell time series) Image preprocessing: Raw images were recorded in 16-bit mode (image size 512 x 512 px�� @ 158 nm/px). Images were upscaled with a factor of 2 (no interpolation) to enable generation of higher-quality segmentation masks. Two sets of mask images are provided: RoiMaps for instance segmentation using e.g. StarDist or binary images for CARE or U-Net. Author(s): Christoph Spahn1,2, Mike Heilemann1,3 Contact email: christoph.spahn@mpi-marburg.mpg.de Affiliation(s): 1) Institute of Physical and Theoretical Chemistry, Max-von-Laue Str. 7, Goethe-University Frankfurt, 60439 Frankfurt, Germany 2) ORCID: 0000-0001-9886-2263 3) ORCID: 0000-0002-9821-3578
Segmentation, Deep Learning, E. coli, ZeroCostDL4Mic
Segmentation, Deep Learning, E. coli, ZeroCostDL4Mic
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