Difference between revisions of "Support:Step-by-step COMKAT GUI Example"

From COMKAT wiki
Jump to navigation Jump to search
Line 18: Line 18:
 
[[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>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.
 +
[[Image:COMKAT step 9.png]]
  
 
== Load input function ==
 
== Load input function ==
 
[[Image:COMKAT step2.png]]
 
[[Image:COMKAT step2.png]]
 +
Press 'Get Data from File'. Then you will see the Input Function GUI opened.
 +
[[Image:COMKAT step 3.png]]
 +
Click 'Browse' and choose the excel file in the testing data set for input function.
 +
[[Image:COMKAT step 4.png]]
  
 
Select 3rd column as the activity, use 'micro Ci/ml' as unit. Hit 'OK'.
 
Select 3rd column as the activity, use 'micro Ci/ml' as unit. Hit 'OK'.

Revision as of 22:05, 13 April 2009

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:

COMKAT GUI steps 1.png

Load kinetic model

COMKAT step 10.png
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. COMKAT step 9.png

Load input function

COMKAT step2.png Press 'Get Data from File'. Then you will see the Input Function GUI opened. COMKAT step 3.png Click 'Browse' and choose the excel file in the testing data set for input function. COMKAT step 4.png

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

Adjust parameter estimation settings

Estimate parameters

Save results