Another metric we came up with was to find how deep a ligand was buried in a pocket of a protein sample. To implement this, we decided to use the idea of making a convex hull for the protein. This week I worked on making the convex hull for the protein. I did some research on the code already in PMPL to decide the best way to go about making this work. Then I met with my mentors and group to talk about our progress on the project and the next step we had to take.

Then I went back to looking through our collision detection method (PQP) to figure out how we could get information about the penetration of the ligand in a protein’s pocket. This week I learnt a lot about the collision detection method we are making use of in the project and why we chose to use this method. The method computes different information about a robot and an obstacle that proved to be helpful with our specific project.