Difference between revisions of "mrcImageShapeOrientation"
(Created page with "'''mrcImageShapeOrientation''' is the program that calculates that calculates Orientation Parameter for representation of orientation of particle images(3D also 2D). It perfor...") |
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pi = <3cos(anglei)^2 -1 >/2 | pi = <3cos(anglei)^2 -1 >/2 | ||
| − | + | and, i means axis of x, y, z, anglei means angle from the axis. | |
| − | + | The axis of image is determined as the vector whose orientation from small one to large one among 2 points whose pixel value is over the threshold (Orientation has no effect in some cases). When calcutaing average, it uses weight that is multiplied the length of vector to the density of 2 points (pixel value - threshold). Consequently, the orientation of vector that has 2 distant points whose density is large takes precedence.<br> | |
| − | + | Thus, it can analysis independent to position of particle. | |
== List of option == | == List of option == | ||
| Line 38: | Line 38: | ||
<td>-thres</td> | <td>-thres</td> | ||
<td>Optional</td> | <td>Optional</td> | ||
| − | <td> | + | <td>threshold defining density</td> |
<td>0.0 </td> | <td>0.0 </td> | ||
</tr> | </tr> | ||
| Line 71: | Line 71: | ||
<tr> | <tr> | ||
<td>0</td> | <td>0</td> | ||
| − | <td> | + | <td>Calculation of Orientation Parameter each direction(x, y, z)</td> |
</tr> | </tr> | ||
</div> | </div> | ||
Latest revision as of 00:26, 31 July 2014
mrcImageShapeOrientation is the program that calculates that calculates Orientation Parameter for representation of orientation of particle images(3D also 2D). It performs the purpose of same as mrcImageShapePCA by using another method.
Contents
Algorithm
It determines the shape of the 3D object by using Orientation Parameter.
Orientation parameter
Orientation Parameter is used when indicating the order of the sequence of molecules in a liquid crystal. Here, it is used for indicating the deviation of the density.
pi = <3cos(anglei)^2 -1 >/2
and, i means axis of x, y, z, anglei means angle from the axis.
The axis of image is determined as the vector whose orientation from small one to large one among 2 points whose pixel value is over the threshold (Orientation has no effect in some cases). When calcutaing average, it uses weight that is multiplied the length of vector to the density of 2 points (pixel value - threshold). Consequently, the orientation of vector that has 2 distant points whose density is large takes precedence.
Thus, it can analysis independent to position of particle.
List of option
Main option
-m details
| Value | Description |
|---|---|
| 0 | Calculation of Orientation Parameter each direction(x, y, z) |
