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--- eyes:logics:normalization [2017/06/07 17:46]
bgraf
+++ eyes:logics:normalization [2017/06/08 15:42]
jschlie1
@@ Line 1: / Line 1: @@
 ====== Normalization ======
+FIXME THIS position should be used for a brief introduction (max 2 sentences!) of the logic, stating WHAT and WHY it is doing something.
 ===== Usage =====
+FIXME Here, a general/generic description of HOW the logic is USED should be given. Try to be as general as possible, but also mention prerequisites, restrictions, advantages, requirements which are specific of this logic. Basically everything the user needs to know to successfully use this logic.
-===== Parameters ====
+===== Processors =====
+==== Normalize ====
+This processor is used to generate normalized images out of the input image stack. This is performed according to the specified mean and sigma values.
-=== Mask ===
+|< 100% 30% >|
-Specifies whether a circular mask is used on the images
+^ Parameters           ^ Description     ^
+| Mask                 | Specifies whether a circular mask is used on the images. |
+| -> Auto crop         | If activated, automatically crops each image to the minimum size. |
+| -> Radius (fraction) | Determines the radius of the applied circular mask. Accepted value range: [0…1] |
+| Mean                 | The desired mean pixel value after normalization. |
+| Sigma                | The desired pixel value standard deviation after normalization. |
-=== Mean ===
+==== Normalize against background ====
-The desired mean pixel value after normalization
+Here, standard deviation and mean are calculated based on a user set radius, but only pixels that are outside the specified circle are used during the computation. This technique is used to enhance the signal of the images as usually the outer part contains only noise. While in the initial mean and standard deviation computation only the outside pixel values are used, all pixels are adjusted during the application of the new mean and standard deviation. Inverting the image during computation is also possible.
-=== Sigma ===
+|< 100% 30% >|
-The desired pixel value standard deviation after normalization
+^ Parameters           ^ Description ^
+| Invert               | Description of this parameter |
+| Mean                 | more description |
+| Radius               | and more more more |
+| Standard deviation   | ... descriptions |
+| Use mask             | ... |
-==== Mask Mode: circular ====
+==== Normalize range ====
+FIXME
-=== Auto-crop ===
+|< 100% 30% >|
-If activated, automatically crops each image to the minimum size.
+^ Parameters           ^ Description ^
+| Maximum              | FIXME |
+| Minimum              | FIXME |
-=== Radius (fraction) ===
-Determines the radius of the applied circular mask.
-Accepted value range: [0…1]
-==== Inputs ====
-=== io::input ===
-Stack of input images (1D,2D or 3D)
-==== Outputs ====
-=== io::output ===
-The output images are normalized.
-==== Additional Information ====
-===== Concept =====