BioImage Information Index

Biii is a website for organizing bioimage analysis resources. We manually edit following pages, for you to search tools, workflows and functions for bioimage analysis:

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SimuCell

An open-source framework to synthetically generate fluorescent microscopic images of cellular population.

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Xuggler Slider

Package/Library: 
Icy
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Volocity Acquisition

Package/Library: 
Volocity
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Endrov


Endrov started development in 2007 by Johan Henriksson in the group of Thomas Bürglin group / Karolinska insitutet. At that time it was merely a tool to support the analysis of C. elegans embryogenesis. It was decided to not base it on ImageJ because little of it could be reused, many of the problems came from the core design. Since then the scope of Endrov has expanded to be useful for all image processing and be able to replace ImageJ.

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ColorLab

Package/Library: 
MATLAB
Matlab Image Processing Toolbox
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EBImage

EBImage is an open source image processing and analysis package for the statistical programming language R. Its primary goal is to enable automated analysis of large sets of images such as those obtained in high-throughput screening. An extensive range of basic image processing and feature extraction methods are provided. EBImage is available through the Bioconductor software project (www.bioconductor.org).

Strengths

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PhenoRipper

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DIPimage

DIPimage is a MATLAB toolbox for scientific image processing and analysis build on the DIPlib image library. It is a tool for teaching and research in image processing. Most operations are independent of dimensionality, and are defined for any data type that MATLAB can store. Many functions are available through a GUI, which makes them more accessible to novices.

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