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− | <div | + | <div class="Figure_1"><img src="https://static.igem.org/mediawiki/2017/3/34/T--TU-Eindhoven--Software_command_prompt.png" width="832" height="503" alt="Figure_2_of_model_part" /> |
<figcaption>Figure 1: Command Prompt</figcaption></div> | <figcaption>Figure 1: Command Prompt</figcaption></div> | ||
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− | <div | + | <div class="Figure_2"><img src="https://static.igem.org/mediawiki/2017/8/8a/T--TU-Eindhoven--Software_select_path.png" width="593" height="87" alt="Figure_2_of_model_part" /> |
<figcaption>Figure 2: Select Path with Windows Explorer</figcaption></div> | <figcaption>Figure 2: Select Path with Windows Explorer</figcaption></div> | ||
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− | <div | + | <div class="Figure_3"><img src="https://static.igem.org/mediawiki/2017/2/2d/T--TU-Eindhoven--Software_change_directory.png" width="382" height="187" alt="Figure_2_of_model_part" /> |
<figcaption>Figure 3: Change directory of the command prompt</figcaption></div> | <figcaption>Figure 3: Change directory of the command prompt</figcaption></div> | ||
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− | <div | + | <div class="Figure_4"><img src="https://static.igem.org/mediawiki/2017/a/a6/T--TU-Eindhoven--Software_running_example_via_perl.png" width="804" height="647" alt="Figure_2_of_model_part" /> |
<figcaption>Figure 4: Command Prompt when running example via perl</figcaption></div> | <figcaption>Figure 4: Command Prompt when running example via perl</figcaption></div> | ||
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− | <div | + | <div class="Figure_5"><img src="https://static.igem.org/mediawiki/2017/5/50/T--TU-Eindhoven--Software_running_dump_via_windows.png" width="802" height="615" alt="Figure_2_of_model_part" /> |
<figcaption>Figure 5: Command Prompt when running example via windows executor</figcaption></div> | <figcaption>Figure 5: Command Prompt when running example via windows executor</figcaption></div> | ||
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− | <div | + | <div class="Figure_6"><img src="https://static.igem.org/mediawiki/2017/b/bd/T--TU-Eindhoven--Software_matlab_set_path.png" width="1000" alt="Figure_2_of_model_part" /> |
− | <figcaption>Figure 6: Home Tab of Matlab </figcaption> | + | <figcaption>Figure 6: Home Tab of Matlab </figcaption></div> |
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− | <div | + | <div class="Figure_7"><img src="https://static.igem.org/mediawiki/2017/e/e9/T--TU-Eindhoven--Software_matlab_set_path_icon.png" width="95" height="34" alt="Figure_2_of_model_part" /> |
− | <figcaption>Figure 7: Matlab Set Path icon</figcaption> | + | <figcaption>Figure 7: Matlab Set Path icon</figcaption></div> |
The window "Set Path" then opens and by clicking on "Add with Subfolders…" you can select the NFtools folder. This is done by first going to the driver (D-drive), followed by the NFsim folder, then NFsim_v1.11 and there you will see the folder NFtools, as in Figure 8. Select the NFtools folder, press Save and then Matlab will add the folders and their subfolders. | The window "Set Path" then opens and by clicking on "Add with Subfolders…" you can select the NFtools folder. This is done by first going to the driver (D-drive), followed by the NFsim folder, then NFsim_v1.11 and there you will see the folder NFtools, as in Figure 8. Select the NFtools folder, press Save and then Matlab will add the folders and their subfolders. | ||
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− | <div | + | <div class="Figure_8"><img src="https://static.igem.org/mediawiki/2017/b/bb/T--TU-Eindhoven--Software_select_folder_matlab.png" width="740" height="222" alt="Figure_2_of_model_part" /> |
− | <figcaption>Figure 8: Select the folder NFtools in Matlab</figcaption> | + | <figcaption>Figure 8: Select the folder NFtools in Matlab</figcaption></div> |
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− | <div | + | <div class="Figure_9"><img src="https://static.igem.org/mediawiki/2017/f/fe/T--TU-Eindhoven--Software_matlab_directory.png" width="1000" alt="Figure_2_of_model_part" /> |
− | <figcaption>Figure 9: Editor Tab Matlab</figcaption> | + | <figcaption>Figure 9: Editor Tab Matlab</figcaption></div> |
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− | <div | + | <div class="Figure_10"><img src="https://static.igem.org/mediawiki/2017/0/02/T--TU-Eindhoven--Software_change_directory_icon.png" width="48" height="29" alt="Figure_2_of_model_part" /> |
− | <figcaption>Figure 10: Matlab Change Directory icon</figcaption> | + | <figcaption>Figure 10: Matlab Change Directory icon</figcaption></div> |
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− | <div | + | <div class="Figure_11"><img src="https://static.igem.org/mediawiki/2017/2/2b/T--TU-Eindhoven--Software_command_window_matlab.png" width="1000" height="270" alt="Figure_2_of_model_part" /> |
− | <figcaption>Figure 11: Matlab Command Window</figcaption> | + | <figcaption>Figure 11: Matlab Command Window</figcaption></div> |
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− | <div | + | <div class="Figure_12"><img src="https://static.igem.org/mediawiki/2017/c/c3/T--TU-Eindhoven--Software_tool_graph_a_300.png" width="490" alt="Figure_2_of_model_part" /> |
− | <figcaption>Figure 12: Figure a, showing the amount of molecules over time</figcaption> | + | <figcaption>Figure 12: Figure a, showing the amount of molecules over time</figcaption></div> |
− | <div | + | <div class="Figure_13"><img src="https://static.igem.org/mediawiki/2017/1/16/T--TU-Eindhoven--Software_figureb_w500.png" width="490" height="375" alt="Figure_2_of_model_part" /> |
− | <figcaption>Figure 13: Figure b, showing the total amount of complexes over time</figcaption> | + | <figcaption>Figure 13: Figure b, showing the total amount of complexes over time</figcaption></div> |
− | <div | + | <div class="Figure_14"><img src="https://static.igem.org/mediawiki/2017/2/21/T--TU-Eindhoven--Software_figurec_w500.png" width="500" height="375" alt="Figure_2_of_model_part" /></div> |
If you look at the legends, you see that we used different methods to generate the graphs in the figures. Which method is most useful depends on the system that is implemented in the model. Therefore, it is useful to look at the data in the workspace (Figure 15) of Matlab to see which method works the best for generating your output. In our example, the results of method 1 and method 2 are the same for the total amount of complexes and for the total amount of molecules, so therefore we choose to only depict the results of method 1 and 3 in our graphs. | If you look at the legends, you see that we used different methods to generate the graphs in the figures. Which method is most useful depends on the system that is implemented in the model. Therefore, it is useful to look at the data in the workspace (Figure 15) of Matlab to see which method works the best for generating your output. In our example, the results of method 1 and method 2 are the same for the total amount of complexes and for the total amount of molecules, so therefore we choose to only depict the results of method 1 and 3 in our graphs. | ||
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− | <div | + | <div class="Figure_15"><img src="https://static.igem.org/mediawiki/2017/2/2b/T--TU-Eindhoven--Software_workspace_matlab.png" width="393" height="534" alt="Figure_2_of_model_part" /></div> |
Revision as of 21:22, 30 October 2017