Jekyll2022-09-20T01:17:45-07:00https://imada.sdu.dk/~daniel/feed.xmlDaniel Merklepersonal descriptionDaniel Merkledaniel@imada.sdu.dkCircles and Crossings in Boston2019-07-01T00:00:00-07:002019-07-01T00:00:00-07:00https://imada.sdu.dk/~daniel/posts/blog-post-edu<p><img src="https://imada.sdu.dk/~daniel/images/blog/edu.png" alt="Alt text" style="padding:40px" /></p>Daniel Merkledaniel@imada.sdu.dkA Double Pushout Diagram2019-06-27T00:00:00-07:002019-06-27T00:00:00-07:00https://imada.sdu.dk/~daniel/posts/blog-post-dpo<p><img src="https://imada.sdu.dk/~daniel/images/blog/dpo.png" alt="Alt text" style="padding:40px" /></p>
<p>The above depicts a Double Pushout diagram to model a chemical reaction. An interactive version of the software where this is used can be found <a href="https://cheminf.imada.sdu.dk/mod/playground.html">here</a>.</p>
<p>See also:</p>
<p>Andersen, J. L., C. Flamm, D. Merkle, P. F.
Stadler: <em>Chemical Transformation Motifs — Modelling Pathways as
Integer Hyperflows</em>. IEEE/ACM Transactions on Computational Biology
and Bioinformatics, 16:2, 510–523, 2019.</p>Daniel Merkledaniel@imada.sdu.dkA search tree for graph canonization2019-06-27T00:00:00-07:002019-06-27T00:00:00-07:00https://imada.sdu.dk/~daniel/posts/blog-post-canon<p><img src="https://imada.sdu.dk/~daniel/images/blog/canon.png" alt="Alt text" style="padding:40px" />
The figure depicts a search tree for graph canonization. An interactive version can be found <a href="http://jakobandersen.github.io/graph_canon_vis">here</a>. The figures is taken from:</p>
<p>Andersen, J. L., D. Merkle: <em>A Generic Framework for
Engineering Graph Canonicalization Algorithms</em>. <em>Proceedings of the
Twentieth Workshop on Algorithm Engineering and Experiments, ALENEX
2018</em>. SIAM, 139–153. 2018.</p>Daniel Merkledaniel@imada.sdu.dkThe figure depicts a search tree for graph canonization. An interactive version can be found here. The figures is taken from:Harvard Medical School - Work Impression2019-06-26T00:00:00-07:002019-06-26T00:00:00-07:00https://imada.sdu.dk/~daniel/posts/blog-post-hms<p><img src="https://imada.sdu.dk/~daniel/images/blog/hms-board.jpg" alt="Alt text" style="padding:40px" />
A typical whiteboard during my stay at HMS in Harvard.</p>Daniel Merkledaniel@imada.sdu.dkA typical whiteboard during my stay at HMS in Harvard.