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  • leverjs is the new new. it combines our previous LEVER and CloneView projects into a single set of software tools for working with live cell & tissue microscopy images.

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  • Cuda Kernels with Mex wrapper to process 3-D images

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  • source code for "Segmenting Touching Cells" manuscript is in review - code is NOT RELEASED FOR PUBLIC USE - this repository is only for use by selected reviewers code will be released free and open source when manuscript is accepted...

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  • source code from A.R. Cohen, C. Bjornsson, S. Temple, G. Banker, and B. Roysam, "Automatic Summarization of Changes in Biological Image Sequences using Algorithmic Information Theory". IEEE TPAMI, 2009. 31(8)

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  • helper functions for image read/write and import.

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  • Open source lineage editing and validation tools for analysis of proliferating cells in phase-contrast microscopy.

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  • source code from E. Wait, et al., Visualization and Correction of Automated Segmentation, Tracking and Lineaging from 5-D Stem Cell Image Sequences. BMC Bioinformatics, 2014.

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  • open source release for Joshi, et al., "Automated Measurement of Cobblestone Morphology for Characterizing Stem Cell-Derived Retinal Pigment Epithelial Cell Cultures", Journal of Occular Pharmacology and Therapeutics, In press, 2016.

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  • This is the source code for a manuscript currently under review. After the manuscript is accepted, the code will be available open-source (GPL v2). Until then, the code should only be viewed or downloaded by reviewers or editors for evaluation

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  • CloneView HTML5 viewer for LEVER - source from M. Winter, et al.,Computational Image Analysis Reveals Intrinsic Multigenerational Differences Between Anterior and Posterior Cerebral Cortex Neural Progenitor Cells, Stem Cell Reports (2015)

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  • source code for static lib or dll bzip2 goes with the MultisetNCD, AITP and GapSpectral projects

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  • source code from Clark, B., et al., Generation of Rab-based transgenic lines for in vivo studies of endosome biology in zebrafish. Developmental Dynamics, 2011. Blob tracker!

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  • source code for A.R.Cohen and P.M.B. Vitanyi, Normalized Compression Distance of Multisets with Applications, IEEE Transactions on Pattern Analysis and Machine Intelligence. 2014.

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  • source code from "Axonal transport analysis using Multitemporal Association Tracking." Int J Comput Biol Drug Des. 2012;5(1):35-48.

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  • source code for Algorithmic Information Theoretic Prediction and Discovery from Cohen et al., Computational prediction of neural progenitor cell fates, Nature Methods, 2010.

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