PhD Projects
4D (3D+T) Pavement Cell Analysis Jan.2018 - Dec 2021
Accurate segmentation of cells from 3D pavement cell image stack
Tracking segmented cells over time
Build the 3D model for individual cell and extract biological features
Analyze the growth of those cells based on biological features
Propose joint segmentation/tracking deep learning method
3D Neuron Morphology Analysis Jan 2020 - Nov 2022
3D cellular structure shape modeling using skeleton mesh representation
3D neuron classification based on the skeleton mesh representation
Sub-cellular features computation from the 3D shape model
Applied it specifically on Ciona neurons and find that Ciona neuron functions may be closely related to neuron shapes
BisQue: Open Source Web-based Image Analysis Platform Jan.2019 - Present
Integrate new image analysis methods as bisque modules to make them convenient to use
Build an interactive 3D segmentation mask visualization tool in BisQue
Help promote image-based inter-disciplinary research by utilizing BisQue
Help update BisQue backend to make it support the latest image analysis tools such as GPU-enabled methods