Image Informatics and Computational Biology Unit
Image Collections --
Software --
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Wndchrm - an open source utility for biological image analysis.
Shamir L, Orlov N, Eckley DM, Macura T, Johnston J, Goldberg IG.
Source Code for Biology and Medicine. 3: 13, 2008.
[PubMed]
[local PDF]
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This utility implements the WND-CHARM algorithm described in:
WND-CHARM: Multi-purpose image classification using compound image transforms.
Orlov N, Shamir L, Macura T, Johnston J, Eckley DM, Goldberg IG
Pattern Recognition Letters. 29(11): 1684-93, 2008.
[PubMed]
[local PDF]
Primary Data --
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Tracking stem cell differentiation without biomarkers using pattern recognition and phase contrast imaging. Delaney, J.D., Nakatake, Y., Coletta, C.E., Eckley, D. Mark., Orlov, N.V., Ko, M.S., Goldberg, I.G. (submitted December 2011)
- AllGenes.tgz - ESC Source Image Library - 5.9GB
- Tiff images and WND-CHARM signature files for all 56 Murine embryonic stem cell lines conditionally overexpressing {Doxycycline +/-} transcription factors.
- CuratedGenes.tgz - Experimental data set used in publication - 2.3GB
- WND-CHARM signature files and corresponding placeholder (empty) tiff files used for WND-CHARM software analysis.
- CellsandPlastic.fit - WND-CHARM classifier to identify images containing confluent cells versus images where cells are absent.
- WND_Com_Cur_42Gene.exp - WND-CHARM experiment file containing experiment configuration, used as input to the WND-CHARM Experiment Automation Perl script
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