Team:Imperial College/Appendices

From 2008.igem.org

(Difference between revisions)
m
 
(10 intermediate revisions not shown)
Line 1: Line 1:
{{Imperial/StartPage2}}
{{Imperial/StartPage2}}
-
<br>
 
-
<br>
 
-
&nbsp; <font size=6px color=#E5EBFF><b>Appendices for Dry Lab</b></font>
 
-
<br>
 
-
<br>
 
 +
===Appendices for Dry Lab===
{{Imperial/Box1|MATLAB Files|
{{Imperial/Box1|MATLAB Files|
-
 
+
======Modelling Motility======
-
====Modelling Motility====
+
*'''[[Media:Getdata.m|Data extraction algorithm. Obtains motility properties from trajectory data]]'''
*'''[[Media:Getdata.m|Data extraction algorithm. Obtains motility properties from trajectory data]]'''
*'''[[Media:Traj.m|Generates trajectory based on generated parameters]]'''
*'''[[Media:Traj.m|Generates trajectory based on generated parameters]]'''
Line 16: Line 11:
*'''[[Media:Modelfit2.m‎|Generates parameters for the second run of cell trajectory]]'''
*'''[[Media:Modelfit2.m‎|Generates parameters for the second run of cell trajectory]]'''
-
====Synthetic Video====
+
======Synthetic Video======
*'''[http://www.mathworks.com/matlabcentral/files/7309/randraw.m Random Number Generator]'''
*'''[http://www.mathworks.com/matlabcentral/files/7309/randraw.m Random Number Generator]'''
-
*'''[[Media:Bacshape.m‎|Generation of Bacteria Shape Characteristics]]'''
+
*'''[[Media:Shape.m‎|Generation of Bacteria Shape Characteristics]]'''
*'''[[Media:Motility.m‎|Generation of Bacteria Motility Characteristics]]'''
*'''[[Media:Motility.m‎|Generation of Bacteria Motility Characteristics]]'''
-
*'''[[Media:Bacvideo.m‎|Generation of Synthetic Video (Requires above 2 files to run)]]'''
+
*'''[[Media:Bacvideo.m‎|Generation of Synthetic Video (Requires the above 2 files to run)]]'''
-
====Probabilistic Methods====
+
======Probabilistic Methods======
*'''[[Media:Marg.m‎ |Plots the posterior of (μ,σ) for a normal distribution]]'''
*'''[[Media:Marg.m‎ |Plots the posterior of (μ,σ) for a normal distribution]]'''
-
*'''[[Media:Postexp.m|Plots the posterior of <math>\lambda</math> for an exponential distribution]]'''
+
*'''[[Media:Postexp.m|Plots the posterior of λ for an exponential distribution]]'''
-
====Modelling Growth====
+
======Modelling Growth======
*'''[[Media:Ode.m|The growth of bacteria at a constant growth rate]]'''
*'''[[Media:Ode.m|The growth of bacteria at a constant growth rate]]'''
*'''[[Media:Test.m|Simulation of the Hill Function]]'''
*'''[[Media:Test.m|Simulation of the Hill Function]]'''
Line 35: Line 30:
*'''[[Media:Experiment_data.xls|Excel spread sheet of Data from experiment + a log graph of experimental results]]'''
*'''[[Media:Experiment_data.xls|Excel spread sheet of Data from experiment + a log graph of experimental results]]'''
-
====Modelling Genetic Circuit====
+
======Modelling Genetic Circuit======
 +
*'''[[Media:Gfp.m|ODE system describing constitutive gene expression]]'''
 +
*'''[[Media:SimulationGfp.m|Simulation file for constitutive gene expression]]'''
 +
*'''[[Media:InduciblePromoter_SimpleODE.m|ODE system describing simple model]]'''
 +
*'''[[Media:InduciblePromoterSimple.m|Simulation file for simple model]]'''
 +
*'''[[Media:InduciblePromoter_ODE.m|ODE system describing more complex model]]'''
 +
*'''[[Media:InduciblePromoter.m|Simulation file for more complex model]]'''
 +
*'''[[Media:SimpleModelWorking.pdf‎‎|PDF of working - simple model]]'''
 +
*'''[[Media:ComplexModelWorking.pdf‎|PDF of working - complex model]]'''
 +
*'''[[Media:InduciblePromoterLoadup.m|Simulation file for modelling LacI repression of promoter before IPTG is introduced]]'''
 +
}}
-
====Tutorials====
+
{{Imperial/Box1|Other Files|
 +
======Tutorials======
The following are four tutorials which introduce us to data analysis and modelling. The tutorials are focused on the above approach. MATLAB codes used for data analysis can be found in the final link.
The following are four tutorials which introduce us to data analysis and modelling. The tutorials are focused on the above approach. MATLAB codes used for data analysis can be found in the final link.
Line 50: Line 56:
}}
}}
-
<br clear="all"><html><center><table style="color:#ffffff;background-color:#66aadd;" cellpadding="3" cellspacing="1" border="0" bordercolor="#ffffff" align="center">
+
{{Imperial/EndPage|Motility|Wet_Lab}}
-
<tr><td><ul id="sddm"></html>[[Team:Imperial_College/Motility|< Previous]]<html></ul>
+
-
</td><td><ul id="sddm"><a href="#">Back to top</a></ul>
+
-
</td><td><ul id="sddm"></html>Next ><html></ul>
+
-
</td></tr></table>
+
-
</center></html>
+
-
</div></td></tr></table>
+

Latest revision as of 00:32, 30 October 2008


Appendices for Dry Lab

MATLAB Files
Modelling Motility
Synthetic Video
Probabilistic Methods
Modelling Growth
Modelling Genetic Circuit

Other Files
Tutorials

The following are four tutorials which introduce us to data analysis and modelling. The tutorials are focused on the above approach. MATLAB codes used for data analysis can be found in the final link.