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Project source and documentation for "LEVERSC: Cross-Platform Scriptable Multichannel 3-D Visualization for Fluorescence Microscopy Images"

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.

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

a selection of recent presentations

This project contains analysis source code for the publication: Winter et al., Dynamics and molecular control of calcium-vesicle motion during sea urchin skeletogenesis revealed by 4D lattice-light-sheet-microscopy, 2020.

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

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)

source code for 'Web Similarity', A. R. Cohen and P. M. B. Vitanyi. In review. Intended for review evaluation only. Not licensed for public use. Will be released free and open source on acceptance of manuscript.

Cuda Kernels with Mex wrapper to process 3-D images

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.

wics talk on distributed computation

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.

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

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

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!

helper functions for image read/write and import.

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)