neuroelf_gui_-_image_montage_ui
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— | neuroelf_gui_-_image_montage_ui [2010/06/15 04:16] (current) – created jochen | ||
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+ | ====== Image montage UI ====== | ||
+ | ===== Motivation ===== | ||
+ | While for data inspection the screen resolution (e.g. 1mm equals one pixel for the 3-slices view) is sufficient, paper-based publication (articles, posters, etc.) usually require much higher resolution images (e.g. at least 150 dpi, which means that for those pictures, a super-sampling of at least factor 6 is required to get 25.4 * 6 = 152.4 pixels into one inch!). | ||
+ | |||
+ | As the main UI does not allow that kind of high-resolution zoom, a different UI is available for this task. | ||
+ | |||
+ | ===== Layout ===== | ||
+ | The image montage UI is available via the Visualization -> Create montage images menu item and looks like this: | ||
+ | |||
+ | {{: | ||
+ | |||
+ | This dialog has the following controls and properties: | ||
+ | * slicing direction (supports sagittal, coronal, and axial/ | ||
+ | * flipping of slicing direction (non-flipped: | ||
+ | * X-flip (for coronal/ | ||
+ | * X/Y/Z coordinate range (set minimum value and step to ' | ||
+ | * super-sampling factor (up to 8) | ||
+ | * montage packing layout (default: letter formatted output) | ||
+ | * re-setting background color (replacing black with a color, incl. smoothed border support) | ||
+ | * adding up to 10 pixels of additional border between images | ||
+ | * either show output or write to file (using '' | ||
+ | * pre-defined volumes to cover the brain of different template spaces | ||
+ | |||
+ | ===== Configuration example ===== | ||
+ | This is a typical usage example. Make sure to configure the statistical map(s) with the correct threshold (stat, k), colors, etc! | ||
+ | |||
+ | * for the MNI brain, the drop-down can be set to '' | ||
+ | * X, Y, and Z min/max to -78/78, -110/82, -64/92 | ||
+ | * using the configured step-size to determine number of slices | ||
+ | * sets a new default layout (and updates the layout dropdown choices) | ||
+ | * enabling X-flip | ||
+ | * choosing a step-size of '' | ||
+ | * setting the super-sampling factor to 4 | ||
+ | * enabling anatomical transparency | ||
+ | * choosing a new background color R: 40, G: 100, B: 160 (middle-light blue) | ||
+ | * adding 6 pixels of border | ||
+ | * choosing '' | ||
+ | * disabling (if necessary) '' | ||
+ | * click on '' | ||
+ | |||
+ | The output then looks like this (for a random covariate thresholded with r >= 0.275) | ||
+ | |||
+ | {{: | ||
+ | |||
+ | And a zoomed snippet (using Matlab' | ||
+ | |||
+ | {{: |
neuroelf_gui_-_image_montage_ui.txt · Last modified: 2010/06/15 04:16 by jochen