"
Team:UPO-Sevilla/Project/Notebook/Multiagent Modeling
From 2011.igem.org
Notebook
Multiagent Modeling
Adrián Arellano
Week 1
Week 2
Week 3
Week 4
Week 5
Week 6
Week 7
This is just the summer diary. During the academic course we all have spent much time working hard looking for money, organizing the team, giving talks in high-schools, writing in our synthetic biology blog, etc.
I carry on programming day and night. NetLogo is a good tool because it is easy but there are many things that could be written in other way. This week I have almost finished the final version of the simulation. I have spent a lot of time debugging thousand and thousand of little mistakes in the source code but it seems to be finished. I have just to implement the temperature effect and the IPTG effect and it will be finished, but now I am a bit more experienced with NetLogo it will not take me so long. (I think). I have been trying to represent the RNA strings as real string which can bend like ropes, but it makes the simulation unnecessary complex. So soon I discarded this idea and finished the simulation. Now it is ready to run. Let’s see what can do! With the simulation program finished, I have been the whole week making runs and changing conditions to see the effects in the biestable behavior. I have used some computers, including my personal laptop, but the effort to my computer is considerable and it sometimes turn off because of the heat. A run can last several hours, so I have to be patient. I have checked the behavior of the simulation in different conditions, changing promoter strength, changing repressors per promoter, etc, and finally I exported this data to .csv files. After this, I plotted this information to compare the results.
Sponsors
