DeepCell Kiosk: scaling deep learning-enabled cellular image analysis with Kubernetes.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 33398191.
- Also identified by DOI 10.1038/s41592-020-01023-0 and PMC identifier 8759612.
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Abstract
Deep learning is transforming the analysis of biological images, but applying these models to large datasets remains challenging. Here we describe the DeepCell Kiosk, cloud-native software that dynamically scales deep learning workflows to accommodate large imaging datasets. To demonstrate the scalability and affordability of this software, we identified cell nuclei in 10<sup>6</sup> 1-megapixel images in ~5.5 h for ~US$250, with a cost below US$100 achievable depending on cluster configuration. The DeepCell Kiosk can be downloaded at https://github.com/vanvalenlab/kiosk-console ; a persistent deployment is available at https://deepcell.org/ .
Medical subject headings
- Cell Nucleus
- Deep Learning
- Diagnostic Imaging
- Image Processing, Computer-Assisted
- Software