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. 2013 Oct 4;14:296. doi: 10.1186/1471-2105-14-296

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Copyright © 2013 Du et al.; licensee BioMed Central Ltd.

This is an open access article distributed under the terms of the Creative Commons Attribution License ( http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Topology fixing of an example stack with Euler number -5. (a) The original binary volume; (b) 1.5-sets of the embedding function; (c) The binary volume without fine protrusions; (d) The detected protrusions; (e) The binary volume (c) merged with the protrusions that have spherical topology; (f-h) The final topology fixing results by our method (f), results obtained by SPHARM-PDM (g), and SPHARM-MAT (h). Three holes, each of which was fixed by our method, can be seen from this viewpoint, highlighted by red circles and black arrows. The modification is small, with 0.42% difference between the fixed (f) and the original volume (a). While SPHARM-MAT introduced even fewer artefacts (0.06%), and SPHARM-PDM 0.83%, none of the holes were filled by SPHARM-MAT (h), and only two of them were filled by SPHARM-PDM (g).