Microscopy image browser: a platform for segmentation and analysis of multidimensional datasets. PLoS Biol. 14, e1002340 (2016). Article PubMed PubMed Central Google Scholar Tu, Z. & Bai, X. Auto-context and its application to high-level vision tasks and 3D brain image segmentation. IEEE ...
SCS assigns spots to cells by adaptively learning the position of each spot relative to the center of its cell using a transformer neural network. SCS was tested on two new subcellular spatial transcriptomics technologies and outperformed traditional image-based segmentation methods. SCS achieved better...
Arxiv-2018 Deep learning and its application to medical image segmentation[Paper] Results: Reference https://github.com/nightrome/really-awesome-semantic-segmentation https://github.com/mrgloom/awesome-semantic-segmentation Releases No releases published ...
🐛 Describe the bug Segementation faults loading a UNet model on pytorch v2.3.0 on macos Apple M2. likely not a UNet specific things but its the quickest model I have at hand to easily reproduce this. Minimum reproducible examples in the ...
Modifications in the implemented model It is crucial to note that the U-Net model was introduced way back in 2015. Although its performance at that point in time was fabulous, the prominent methods and functions of deep learning have evolved simultaneously as well. Hence, there have many succes...
In such highly multiplexed tissue imaging studies, the quality and accuracy of downstream analyses depend critically on the precise identification and correct phenotypic assignment of single cells, which requires accurate demarcation of each cell’s boundary and quantification of its marker expression. ...
various factors of the image capturing such as aliasing, image sampling, reconstruction, and different types of noises may create boundaries of the region of interest ambiguous and indistinct [3]. Recently deep learning has appeared as a revolutionary model so that many medical imaging challenges, ...
“ metric analysis ”. pair counting based metrics in this section, pair-counting based metrics, namely the rand index and its extensions, are defined. at first we define the four basic pair-counting cardinalities, namely a , b , c , and d for crisp and fuzzy segmentations and then we ...
3b). In contrast to other algorithms, this approach for reconstructing cell masks is size- and morphology-independent, insofar as the cell center can be correctly defined. To understand the mechanisms behind Cellpose segmentation errors, we evaluated its performance as a function of cell size on ...
We implemented the proposed algorithm using the TensorFlow computational framework and tested its efficacy on both immunofluorescence (anti-phosphortyrosine (pY)) and bright-field microscopy image data. In addition, to compute marker locations, we obtained nucleus images by staining cells with DNA bindin...