The nucleus is identified by a Weka-trained model. Then the ROI generated by the identified nucleus is applied to both green and red mask to classify cells.

Extract SCV structures from the fluorescence images with Lamp1 and DAPI

This is an automatic tool to quantify the green fluorescence signal over the total cell number from high content images.

This Fiji macro is designed to automatically measure the oil red occupation and intensity in tissues from tif files collected in a folder.

The tool in this repository is designed to analyze the contact angle of neighboring subcellular vesicles captured by fluorescence microsocopes including widefield, confocal and super-resolution ima…

A cell cycle occurs as a cell divides. The somatic cell leaves interphase, undergoes mitosis and eventually gives out two daughter cells. Mitosis is composed by a series of events including prophas…

Distinguish cells labeled with membrane structure and analyze the volume and intensity in each cell.

The tools in this repository are designed to analyze the confocal images of zebrafish myotome whose membrane is labeled by the multicolor cell barcode (ref1). Three types of analysis done by five s…

The red fluorescence labeled cells are distributed in a cluster manner. These tools are used to define the cluster code for each interested nucleus.

To integrate the charging from the optical microscope, the advanced optical microscope and the electronic microscope, I designed this system to automatically sort bills to each PI and generate mont…