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

Blog: 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 able to successfully segment the images that were not able to be accurately segmented by Pearl’s...

Sam Chen

Person: Associate Computational Biologist

I2K 2022 Conference - From Images to Knowledge with ImageJ & Friends

News: January 03, 2022
The Center for Open Bioimage Analysis (COBA) at Broad Institute and LOCI UW-Madison, as well as the Fiji development team at Max Planck Institute of Molecular Cell Biology and Genetics in Dresden, is pleased to formally announce the 2022 “From Images to Knowledge with ImageJ & Friends (I2K)”...

Community’s Input: 2020 BioImage Analysis Survey

Blog: February 08, 2022
Nasim Jamali As creators of open source tools, we spend a lot of time thinking about user needs - what kinds of images people are working with these days, what tools are working well, where the pain points are, and how easy it is to learn how to do any of this in the first place. While things like...

COBA paper on ImageJ and CellProfiler rated #1

News: February 10, 2022
COBA paper on ImageJ and CellProfiler rated #1 in Altmetrics for Best of Current Protocols 2021! ImageJ and CellProfiler: Complements in Open-Source Bioimage Analysis ImageJ and CellProfiler have long been leading open-source platforms in the field of bioimage analysis. ImageJ's traditional strength...

Katherine Stalnaker

Person: Research Associate II
Kate graduated from American University in 2016 with a BA in Psychology. In 2020 she graduated from Rutgers University with her MS in Biomedical Science with a concentration in Neuroscience. Her thesis was on glucose sensing in the brain and the relationship to feeding behavior. Kate has worked in...

How to Normalize Cell Painting Data

Blog: March 22, 2022
Rebecca Senft Workflow update June 2024 update Our recommended normalization workflow is evolving. Please see https://github.com/broadinstitute/jump-profiling-recipe/ for our latest developments on the normalization strategy in specific and aprofiling workflow in general. How to Normalize Cell...