Time-Course Cross Correlation

A Time-Course Cross Correlation (TXC) gives a map as a measure of the correspondence of the shapes of a reference waveform and a functional time course[2], where the reference waveform is specified as an ASCII file which contains one value per line. This allows any arbitrary reference waveform to be specified, such as poisson distribution[3] or an averaged time course (See Section 13, Button 30-5.) The TXC parameter popup window is shown in Figure 24.

  
Figure 24: TXC Parameter popup window.

1. The first step in calculating a TXC map is to load a reference waveform as displayed (24-1). First, press the Load button (24-9) with the right mouse button to pull down the menu. Then select the ``ascii tc'' choice to popup the file browser and load an ASCII file with a ``.asc'' extension.
2. Next, one of two options can be specified to speed up the analysis by limiting which pixels are evaluated. If the Mask checkbox (24-2) is selected, the BckGnd Thres (24-3) is ignored and only those pixel locations with non-zero values in the currently loaded mask are evaluated. When the Mask option is not selected, then those pixels, whose time course mean value is below the BckGnd Thres value, are not evaluated.
3. Then specify the Corr Thres (24-4). Only those pixels whose cross correlation is above this threshold will pass and have non-zero map values. A value of zero is used in the map at pixel locations that are not evaluated or whose cross correlation value is less than the threshold. For multiple cross correlations, a pixels time course will be considered to have passed if at least one passes.
4. When the reference waveform is shorter than the functional time course, multiple cross correlations can be calculated. Each of these multiple cross correlations are calculated with the reference waveform shifted in time by an offset. The offsets are specified by entering a value in the Start (24-5) and End (24-6) fields. Note that both of the offsets must be less than the difference of the lengths between the reference and functional time courses.
5. There are two Map Type choices (24-7). The Max choice results in a map that reflects the maximum correlation value over all of the shift offsets. The Shift choice results in a map that reflects the shift offset where the maximum correlation value occurs. The shift offset is expressed as a percentage of shift range per Equation 5.
6. Prior to calculating the correlation map, the parameters must be saved to a file. Pressing the Save button (24-11) will popup the file browser (See Section 5). After the parameters are saved, the name of the file will appear in the lower left hand corner (24-10). When any parameter is changed the file name disappears since it is no longer consistent with the contents of the file. However, while a file name is displayed, the AutoSave option (24-8) can be selected. The AutoSave option will automatically save the parameters to the current file. The Load button (24-9) can be used to retrieve previously save parameters.
7. Having all the parameters and options set, pressing the Do Map Calc button (24-12) invokes the calculation of the functional map. See Section 9.1 for the details on how to display the map.