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Three-dimensional rendering was performed in ImageJ/Fiji (http://rsb.info.nih.gov/ij/).
Iso-surface rendering was performed on the combined Z-stack images using Imaris imaging software.
Data rendering was performed using SAS 9.1 and statistical analyses were performed using Stata 11.0.
Surface rendering was performed by gray level thresholding using the Chimera software (http://www.cgl.ucsf.edu/chimera) after having low pass filtered the tomograms to 1/10 nm−1/10
Surface rendering was performed independently on each channel to obtain the geometric centers of the nuclei (blue channel, DAPI) and the chromosome territories (red channel, Spectrum orange and green channel, Rhodamine Green), respectively (Figure 3).
Rendering was performed using Voreen.
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Additionally, for composite elements (a captioned picture for instance, see Sect. 4.4), the rendering is performed recursively inside the element's corresponding placeholder on the page.
Image reconstruction and multi-dimensional rendering were performed with Imaris (Bitplane), while tracking and measuring aspects of cellular motility were performed with Pic Viewer Software (John Dempster, University of Strathclyde) [10], [26].
3D reconstruction and volume rendering were performed using a plug-in of ImageJ (NIH).
The image processing and the volume rendering were performed using the Leica TCS software.
Segmentation analysis and 3D rendering were performed with Mimics 12.1 (Materialise N.V., Leuwen, Belgium).
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