Abstract

Models and Datasets for the following publication: Detection and segmentation of morphologically complex eukaryotic cells in fluorescence microscopy images via feature pyramid fusion Korfhage N, Mühling M, Ringshandl S, Becker A, Schmeck B, et al. (2020) Detection and segmentation of morphologically complex eukaryotic cells in fluorescence microscopy images via feature pyramid fusion. PLOS Computational Biology 16(9): e1008179. https://doi.org/10.1371/journal.pcbi.1008179Detection and segmentation of macrophage cells in fluorescence microscopy images is a challenging problem, mainly due to crowded cells, variation in shapes, and morphological complexity. We present a new deep learning approach for cell detection and segmentation that incorporates previously learned nucleus features. A novel fusion of feature pyramids for nucleus detection and segmentation with feature pyramids for cell detection and segmentation is used to improve performance on a microscopic image dataset created by us and provided for public use, containing both nucleus and cell signals.
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Metadata

Date2023-05-04
AuthorsKorfhage, Nikolaus
ContributorsRingshandl, Stephan
Becker, Anke
Schmeck, Bernd
Mühling, Markus
Freisleben, Bernd
RelationshipIs Supplement To: (DOI) 10.1371/journal.pcbi.1008179
Is Supplemented By: (URL) https://github.com/umr-ds/feature_pyramid_fusion
LicenseCreative Commons Attribution 4.0
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Files

NameFormatSizeChecksum (MD5)
cores.zip .zip87.11Mb5892c5ce145132e2cc32a2bbb8f1361a
fpf_add.zip .zip111.5Mbabe1eaa3839f4e9216e0bbeb0fdac857
fpf_add_weighted.zip .zip111.5Mba7846797a7df1d1ec9701b92722e4774
fpf_concat.zip .zip163.2Mb460bfac2543cc59f5a6c448ec4071b97
fpf_concat_weighted.zip .zip163.2Mb21fffbb07013c50a49bbd96d011d0a70
pretrained_grayscale_resnet.zip .zip18.11Mb03feab971bc89c05dc9c81d392e73a31
synmikro_macrophages.tar.gz .gz187.7Mbbdf52dd38e88542e7b296de090e0e74d
with_nucleus.zip .zip87.20Mbd61b783620b99b5f3a2ab7c31fd648f6
without_nucleus.zip .zip87.20Mb554c761a645d050db2621141a3be2691
license_CC-BY-4.0.txt .txt18.21Kb380b31767eeb6303e3bc300d8846f180
Creative Commons Attribution 4.0
Except where otherwise noted, this item's license is described as Creative Commons Attribution 4.0