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  2. Melissa Gillis

Customizing a Model for Fiber Segmentation, Part I: Investigating Possible Methods

August 05, 2022

Melissa Gillis

Segmenting fibers using traditional cell segmentation software can be challenging. Because most biological cell segmentation tools were designed for cells, most programs have...

Read More Customizing a Model for Fiber Segmentation, Part I: Investigating Possible Methods

Customizing a Model for Fiber Segmentation, Part 2: Creating an ilastik Model

August 05, 2022

Melissa Gillis

In the first part of this blogpost I described some of the tools I tried to accurately segment collagen IV fibers including, CellProfiler, Cellpose, and Piximi. Unfortunately none of...

Read More Customizing a Model for Fiber Segmentation, Part 2: Creating an ilastik Model

Customizing a Model for Fiber Segmentation, Part 3: Constructing a CellProfiler Pipeline

August 05, 2022

Melissa Gillis

In the previous two sections of this blogpost I explained how I analyzed multiple methods to segment fluorescent images of collagen IV fibers, and generated accurate segmentation using...

Read More Customizing a Model for Fiber Segmentation, Part 3: Constructing a CellProfiler Pipeline

Customizing a Model for Fiber Segmentation, Part 4: Analyzing the Results

August 05, 2022

Melissa Gillis

In the final section of this blogpost series, I will discuss some of the benefits and drawbacks of this model and discuss some of the data I acquired from the images.

This model was...

Read More Customizing a Model for Fiber Segmentation, Part 4: Analyzing the Results
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