Weekly Notes for Week 38

• This weeks topics: First we will finish last weeks lecture on Generative Chemistries.

• We will discuss the ILP (Interger Linear Programming) forumulation to find pathways and autocatalytic cycles.

• I will introduce to the first mandatory project (a preliminary version is online already).

• I will present the VirtualBox appliance I provided.

• I will give an introduction to graph canonicalization.

• Reading Material:

  • For Canonicalization : Chapter 4 of the PhD thesis by Jakob Lykke Andersen
  • Link for visualising graph canonicalization as shown in the first lecture: http:// jakobandersen.github.io/graph_canon_vis
  • Recommended (voluntary and advanced) reading: A Generic Framework for Engineering Graph Canonization Algorithms, . J. Exp. Algorithmics 25, 1, Article 1.2 (April 2020), 26 pages.