DeepProfiler

DeepProfiler uses deep neural networks to extract morphological features directly from raw microscopy images, bypassing traditional segmentation-and-measurement pipelines. It is designed for high-throughput screens where deep learning representations outperform classical feature sets.

Key capabilities:

• Train and apply convolutional neural networks for feature extraction
• Support for EfficientNet, ResNet, and custom architectures
• Crop and embed single cells from large microscopy images
• Produce embeddings compatible with Pycytominer and downstream profiling workflows

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