Additional file 1.

Multiple processing steps are applied to identify the nucleolar compartment. Examples of the settings for different operations are shown. (a) If fluorescence signals in nucleoli are below the pixel intensities in the nucleoplasm, the Detect dark holes filter can identify nucleoli using the DAPI or probe image. (b) The Median filter reduces noise; regions within the yellow box were magnified 2.5-fold and contrast was increased to show changes generated by the operation. Note that all of the filters are applied only to define the nucleolar compartment; none of the operations affects the fluorescence of the probe image for which pixel values will be measured.

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Kodiha et al. BMC Cell Biology 2011 12:25   doi:10.1186/1471-2121-12-25