Chapter 2 Data Availability

2.1 Source Code

Our source code is available here.

2.2 Experimental Results

The scripts to regenerate all data can be found here.

The below table is a summary of the average genome values at the end of the experiments discussed in the research paper.

2.3 Summary Table of Numerical Results

Experiment	Prophage Loss Rate	Starting Chance of Induction	Prophage Interaction Enabled	Final Chance of Induction	Final Chance of Lysis	Final Difference in Incorporation Vals
PLR Sweep	0.0%	Induction Not Enabled	Interaction Not Enabled	N/A	4.88%	N/A
PLR Sweep	2.5%	Induction Not Enabled	Interaction Not Enabled	N/A	39.19%	N/A
PLR Sweep	5.0%	Induction Not Enabled	Interaction Not Enabled	N/A	85.64%	N/A
Induction Only	0.0%	0%	Interaction Not Enabled	1.56%	4.92%	N/A
Induction Only	0.0%	10%	Interaction Not Enabled	1.55%	4.93%	N/A
Induction Only	2.5%	0%	Interaction Not Enabled	4.78%	13.23%	N/A
Induction Only	2.5%	10%	Interaction Not Enabled	5.16%	19.23%	N/A
Induction Only	5.0%	0%	Interaction Not Enabled	7.50%	82.20%	N/A
Induction Only	5.0%	10%	Interaction Not Enabled	10.14%	54.81%	N/A
Prophage Interaction Only	0.0%	Induction Not Enabled	Harmful	N/A	4.87%	0.05
Prophage Interaction Only	0.0%	Induction Not Enabled	Neutral	N/A	4.85%	0.05
Prophage Interaction Only	0.0%	Induction Not Enabled	Beneficial	N/A	4.92%	0.05
Prophage Interaction Only	2.5%	Induction Not Enabled	Harmful	N/A	94.59%	0.91
Prophage Interaction Only	2.5%	Induction Not Enabled	Neutral	N/A	5.49%%	0.05
Prophage Interaction Only	2.5%	Induction Not Enabled	Beneficial	N/A	5.54%	0.05
Prophage Interaction Only	5.0%	Induction Not Enabled	Harmful	N/A	90.76%	0.92
Prophage Interaction Only	5.0%	Induction Not Enabled	Neutral	N/A	68.64%	0.18
Prophage Interaction Only	5.0%	Induction Not Enabled	Beneficial	N/A	38.19%	0.06