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Peng, T. ; Thorn, K.* ; Schroeder, T.* ; Wang, L.* ; Theis, F.J. ; Marr, C. ; Navab, N.*

A BaSiC tool for background and shading correction of optical microscopy images.

Nat. Commun. 8:14836 (2017)

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Quantitative analysis of bioimaging data is often skewed by both shading in space and background variation in time. We introduce BaSiC, an image correction method based on low-rank and sparse decomposition which solves both issues. In comparison to existing shading correction tools, BaSiC achieves high-accuracy with significantly fewer input images, works for diverse imaging conditions and is robust against artefacts. Moreover, it can correct temporal drift in time-lapse microscopy data and thus improve continuous single-cell quantification. BaSiC requires no manual parameter setting and is available as a Fiji/ImageJ plugin.

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