Zellige example dataset: mouse embryonic cochlea stained for F-actin

<p><strong>Mouse embryonic cochlea stained for F-actin at embryonic stage E16.5. </strong></p> <p>The z-stack image encompasses an epithelial surface and a thick mesh of mesenchymal cells. It was acquired with a swept-field confocal microscope (Bruker OpterraII) equipped with a Nikon Plan-Apochromat 60x lens (NA=1.4). Pixel size 0.133 &micro;m, z step &lt;1 &micro;m. This dataset contains both the ground-truth height map and the height map generated with Zellige, along with the parameters used to generate the latter one. The Zellige parameters used are:</p> <p><span class="math-tex">\(T_{A}=1, T_{otsu}=1, S_{min}=5, \sigma_{xy}=4, \sigma_{z}=1, T_{OSE1}=0.1, R_{1}=5, C_{1}=0.7, T_{OSE2}=0.1, R_{2}=10, C_{2}=0.8.\)</span></p> <p>Nota: to compare the ground truth height map with the Zellige height map, one first needs to substrat 1 to all values of the Zellige height map.</p> <p>See the accompanying paper: Extracting multiple surfaces from 3D microscopy images in complex biological tissues with the Zellige software tool. Tr&eacute;beau <em>et al.</em> 2022: <a href="https://doi.org/10.1101/2022.04.05.485876">https://doi.org/10.1101/2022.04.05.485876</a></p> <p>&nbsp;</p>