Background and Shading Correction for Optical Microscopy.

BaSiCPy is a microscopy image correction package in python (MATLAB and FIJI/ImageJ versions are also available). It achieves high-accuracy with significantly fewer input images, and works for diverse imaging conditions with no manual parameters required. Moreover, BaSiCPy can correct temporal drift in time-lapse microscopy data and thus improve continuous single-cell quantification.

BaSiCPy title figure


Please the original paper in Nature Communications to learn more.

Contributing to BaSiCPy

We are happy about any contributions! Before you start, check out our contributing guide.

Please check our code of conduct before you contribute.

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