Trainable Weka Segmentation: A machine learning tool for microscopy pixel classification

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Abstract

Summary: State-of-the-art light and electron microscopes are capable of acquiring large image datasets, but quantitatively evaluating the data often involves manually annotating structures of interest. This process is time-consuming and often a major bottleneck in the evaluation pipeline. To overcome this problem, we have introduced the Trainable Weka Segmentation (TWS), a machine learning tool that leverages a limited number of manual annotations in order to train a classifier and segment the remaining data automatically. In addition, TWS can provide unsupervised segmentation learning schemes (clustering) and can be customized to employ user-designed image features or classifiers.

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Arganda-Carreras, I., Kaynig, V., Rueden, C., Eliceiri, K. W., Schindelin, J., Cardona, A., & Seung, H. S. (2017). Trainable Weka Segmentation: A machine learning tool for microscopy pixel classification. Bioinformatics, 33(15), 2424–2426. https://doi.org/10.1093/bioinformatics/btx180

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