DATA and CARE model for the segmentation of bacterial nucleoids in SMLM data
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下载链接：
https://zenodo.org/record/8429931
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资源简介：
This dataset and CARE model is part of the publication "Transertion and cell geometry organize the Escherichia coli nucleoid during rapid growth".
Data represents PAINT images of fixed Escherichia coli cells grown in LB Lennox to exponential phase. Cultures were treated with different antibiotics and fixed various treatment times (0 - 60 min).
The strain (NO34) expresses a MreBsw-sfGFP fusion protein from the native chromosomal locus. It was a kind gift from Zemer Gitai (Ouzounov et al., 2016).
The CARE 2D model was trained from scratch for 100 epochs (332 steps/epoch) on 736 paired image patches (image dimensions: (1024,1024), patch size: (256,256)) with a batch size of 4, an initial learning rate of 0.0004, 10% validation data and a laplace loss function, using the CARE 2D ZeroCostDL4Micnotebook. Data was augmented by a factor of two involving rotation and flipping and random zoom magnification.
The model can currently not be used in CSBDeep Fiji plugin, but in the ZeroCostDL4Mic platform.
创建时间：
2024-07-11
