Difference between revisions of "Support:Step-by-step COMKAT GUI Example"
| Line 19: | Line 19: | ||
== Load kinetic model == | == Load kinetic model == | ||
[[Image:COMKAT step 10.png]] | [[Image:COMKAT step 10.png]] | ||
| − | <br>Press the drop-down list of 'Select a model from templates' and choose 'FDG 2-compartment model'. | + | <br><br>Press the drop-down list of 'Select a model from templates' and choose 'FDG 2-compartment model'. |
| − | <br>You should see the COMKAT GUI as below after the model being loaded. | + | <br><br>You should see the COMKAT GUI as below after the model being loaded. |
| − | [[Image:COMKAT step 9.png]] | + | <br><br>[[Image:COMKAT step 9.png]] |
== Load input function == | == Load input function == | ||
==== Load the first file (Continuous counting) ==== | ==== Load the first file (Continuous counting) ==== | ||
| − | [[Image:COMKAT step2.png]] | + | <br>[[Image:COMKAT step2.png]] |
| − | <br>Press 'Get Data from File'. Then you will see the Input Function GUI opened. | + | <br><br>Press 'Get Data from File'. Then you will see the Input Function GUI opened. |
| − | <br>[[Image:COMKAT step 3.png]] | + | <br><br>[[Image:COMKAT step 3.png]] |
| − | <br>Click 'Browse' and choose the excel file in the testing data set for input function. | + | <br><br>Click 'Browse' and choose the excel file in the testing data set for input function. |
| − | <br>[[Image:COMKAT step 4.png]] | + | <br><br>[[Image:COMKAT step 4.png]] |
| − | <br>And you will see this window: | + | <br><br>And you will see this window: |
| − | <br>[[Image:COMKAT step 5.png]] | + | <br><br>[[Image:COMKAT step 5.png]] |
| − | <br>Click the drop-down menu under 'Column' to choose the right column for time data. | + | <br><br>Click the drop-down menu under 'Column' to choose the right column for time data. |
| − | <br>[[Image:COMKAT step 6.png]] | + | <br><br>[[Image:COMKAT step 6.png]] |
| − | <br>Click the drop-down menu under 'Column' to choose the right column for activity data. | + | <br><br>Click the drop-down menu under 'Column' to choose the right column for activity data. |
| − | <br>[[Image:COMKAT step 7.png]] | + | <br><br>[[Image:COMKAT step 7.png]] |
| − | <br>With the right choices of units and columns, you should see the figure below: | + | <br><br>With the right choices of units and columns, you should see the figure below: |
| − | <br>[[Image:COMKAT step 8.png]] | + | <br><br>[[Image:COMKAT step 8.png]] |
| − | <br>Click OK to return to Input Function GUI | + | <br><br>Click OK to return to Input Function GUI |
==== Load the second file (Manual samples) ==== | ==== Load the second file (Manual samples) ==== | ||
Press 'File 2' to get the 2nd file. | Press 'File 2' to get the 2nd file. | ||
Revision as of 05:16, 14 April 2009
Under construction...
The step-by-step tutorial for using COMKAT in parameter estimation.
Introduction
This is a tutorial for using COMKAT to estimate parameter with the data set of microPET rat study. We will load the input function from the excel file, load image and draw region of interest. Then we will estimate the parameters for the ROI(s) and save estimation results.
Download testing data
Please go to Download:Test images:microPET to download the rat data. It's a zip file so you will have to unzip it to a folder on your computer.
Download and install COMKAT
Please refer to Getting started with COMKAT for more details.
Run COMKAT GUI
Once you have downloaded, installed, set path for and validated COMKAT, you may start the COMKAT GUI by typing 'comkat' in MATLAB and hit enter. The COMKAT GUI will open up.
If you are running COMKAT under standalone mode, just double click the executable file and COMKAT GUI will open. By default you should see:
Load kinetic model
Press the drop-down list of 'Select a model from templates' and choose 'FDG 2-compartment model'.
You should see the COMKAT GUI as below after the model being loaded.
Load input function
Load the first file (Continuous counting)
Press 'Get Data from File'. Then you will see the Input Function GUI opened.
Click 'Browse' and choose the excel file in the testing data set for input function.
And you will see this window:
Click the drop-down menu under 'Column' to choose the right column for time data.
Click the drop-down menu under 'Column' to choose the right column for activity data.
With the right choices of units and columns, you should see the figure below:
Click OK to return to Input Function GUI
Load the second file (Manual samples)
Press 'File 2' to get the 2nd file.
Select 3rd column as the activity, use 'micro Ci/ml' as unit. Hit 'OK'.
Press 'File 2', hit 'Browse' again. Select the same excel file. Switch to the 'manual samples' worksheet.
Do the following changes:
Use 'linear interpolation'.
Load image
Draw region of interest
Estimate parameters
Save results
