Difference between revisions of "Team:USTC/Software"

In this section, we will introduce all the software program we used when processing our modeling and experimental data. Through our modeling, many complicated processdures are simply omitted by our convenient programs.

In general, our software programs are used in several sections,

• Fringes Analysis, analysis of interference pattern.
• Adhesion Dynamics, a series of programs relating to bacteria adhesion dynamics.
• Rose Prediction, which calculate the advantages of our ROSE improvement.

All software of our project, you can download them at Github:2015USTCiGEM. All codes are based on

Fringes Pattern Simulation-Film I

This program is used to simulate fringes pattern deliverd by film I.

Code:

Demo

After the formation of demo, we are able to recongize the real situation in our pre-experiment.

Fringes Pattern Simulation-Film II

This program is used to simulate fringes pattern deliverd by film II.

Code

Demo

Film I Fringes Analysis

Using this code, we are able to capture some important parameters in Film I.

Code

Demo

Film II Fringes Analysis-Fringes number analysis

This is the final program used to get our NDM calibration. Based on this software program, we are able to count the number of bright fringes. As a matter of fact, the variation of bright fringes is the key breakthrough to antibiotic analysis.

Code

Demo

Running result
ans =
78

To get a series of results, this program is required.

Demo

ans =

During analysis of ahdesion assay results, we are quite annoyed about counting total bacteria number and moving bacteria number, which is really important for mechanism analysis and results determination. Consequently, this part explains how we efficiently accomplished these tough work based on our software.

Bacteria counting program

This program is used to count the total number of bacteria.

Code

Demo

input image:

output result
ans =
865

Moving Bacteria Counting Program

This program is used to count the total number of moving bacteria. Along with bacterial counting program, we finally got the mechanism of polylysine interaction.

Code

Demo

ans =
405

Bacteria total number-time curve

Coding

Running result

Bacteria movement number-Time curve

Coding

Running result

This program is used to predict the advantages of ROSE construction. We successfully demonstrate our ROSE will be able to amplify fluorescence siganl.

Code

Demo