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Screensize: 640 x 480 800 x 600 1024 x 768 1280 x 1024 UserName: Password: Format Mode: Basic  Help  Prompt  Format: Font Andale Mono Arial Arial Black Book Antiqua Century Gothic Comic Sans MS Courier New Georgia Impact Lucida Console Script MT Bold Stencil Tahoma Times New Roman Trebuchet MS Verdana   Size 1 2 3 4 5 6   Color Black Red Yellow Pink Green Orange Purple Blue Beige Brown Teal Navy Maroon LimeGreen Message: * HTML is OFF * Forum Code is ON Smilies [quote][i]Originally posted by charles.michelich[/i] [br]Information on BIAC MATLAB ROIs: What is the format of the BIAC MATLAB ROIs generated using overlay2? The BIAC MATLAB ROIs are MATLAB .mat files containing a single structure named "roi". This structure includes the size of the image in which the ROI is located, the slices included in the ROI, and the indicies within each slice included in the ROI. Optionally, there are two additionaly fields containing a color and value which are used in overlay2, but contain no meaningful information outside of that context. How do I use these ROIs in my own MALTAB functions and scripts? The function [green]roistats[/green] can be used to determine statistics within one or more ROIs for a specified MR time series. If this function does not fulfill your needs, you can use the functions [green]roi2mask[/green] and [green]mask2roi[/green] to convert the BIAC MATLAB ROIs into logical masks. Here is an example of reading in an roi and converting it into a logical mask: [code][green]roifilename='e:\myroi.roi'; tmp=load(roifilename,'roi','-mat'); mask=roi2mask(tmp.roi);[/green][/code] Also, the function [green]roi2ind[/green] can be used to convert the BIAC MATLAB ROIs into linear indicies. How can I tell if an ROI is a valid BIAC MATLAB ROI? There is a function called [green]isroi [/green]that can be used to verify that a ROI is a valid BIAC MATLAB ROI. Enjoy, Chuck [/quote]   Check here to include your profile signature. Check here to subscribe to this topic.