GRNmap Testing Report: Strain Run Comparisons 2015-05-27
From OpenWetWare
Code Version: "current" version from Dr. Fitzpatrick 2014-09-18
MATLAB Version: 2014a
Computer on which the model was run: SEA120-03
- Last two test categories (wt+dCIN5+dZAP1 and wt+dCIN5+dZAP1+dGLN3) cannot be run on SEA120-03 because the computer only has MATLAB 2014b. Error displayed when Fitzpatrick's code version is run:
Undefined function 'max' for input arguments of type 'matlab.graphics.GraphicsPlaceholder'.
Error in GRNmodel (line 15) nfig = max(figHandles);
- For the first ten categories, we will upload data obtained from September 2014. To see if we can run the last two categories on 2014b without any glaring differences, we will first test wt alone on both 2014a (with Fitzpatrick's fall version of the code) and 2014b (with the code from the class BIOL398-04/S15). If the differences in estimated parameters are negligible, we could move on to run the last two categories (wt+dCIN5+dZAP1 and wt+dCIN5+dZAP1+dGLN3).
- New code version: from BIO398 (Note: file zipped with code was used to test wt)
- MATLAB version: 2014b
- Computer on which the model was run: SEA201-03
- Note: for these older versions of the code, the input file must be in the same folder as the code itself.
To get the LSE & the penalty term, type the following:
Code for LSE: GRNstruct.GRNOutput.lse_out Code for Penalty GRNstruct.GRNOutput.reg_out
wt alone, 2014a
- Input Sheet
- Output Sheet
- Figures
- analysis.xlsx containing bar graphs
- LSE: 7.0809
- Penalty term: 0.0814
wt alone, 2014b
- [[Media:]]
- [[Media:| Output Sheet]]
- [[Media:| Figures]]
- analysis.xlsx containing bar graphs
- LSE: 6.8824
- Penalty term: 0.0814
dCIN5 alone
- Input Sheet
- Output Sheet
- Figures
- analysis.xlsx containing bar graphs
- LSE: 10.6965
- Penalty term: 0.1794
dGLN3 alone
- Input Sheet
- Output Sheet
- Figures
- analysis.xlsx containing bar graphs
- LSE: 15.4498
- Penalty term: 0.0814
dHMO1 alone
- Input Sheet
- Output Sheet
- Figures
- analysis.xlsx containing bar graphs
- LSE: 10.7760
- Penalty term: 0.0814
dZAP1 alone
- Input Sheet
- Output Sheet
- Figures
- analysis.xlsx containing bar graphs
- LSE: 9.5471
- Penalty term: 0.0814
All Strains
- Input Sheet
- Output Sheet
- Figures
- analysis.xlsx containing bar graphs
- LSE: 70.0277
- Penalty term: 0.1794
wt vs. dCIN5
- Input Sheet
- Output Sheet
- Figures
- analysis.xlsx containing bar graphs
- LSE: 15.8220
- Penalty term: 0.1011
wt vs. dGLN3
- Input Sheet
- Output Sheet
- Figures
- analysis.xlsx containing bar graphs
- LSE: 30.0410
- Penalty term: N/A
wt vs. dHMO1
- input.xlsx
- output.xlsx
- zipped figures
- analysis.xlsx containing bar graphs
- LSE:
- Penalty term:
wt vs. dZAP1
- input.xlsx
- output.xlsx
- zipped figures
- analysis.xlsx containing bar graphs
- LSE:
- Penalty term:
wt + dCIN5 + dZAP1
- input.xlsx
- output.xlsx
- zipped figures
- analysis.xlsx containing bar graphs
- LSE:
- Penalty term:
wt + dCIN5 + dZAP1 + dGLN3
- input.xlsx
- output.xlsx
- zipped figures
- analysis.xlsx containing bar graphs
- LSE:
- Penalty term:
Results and Discussion
- What other questions should be answered to help us further analyze the data?