View source for Standard tasks provided through commands on the Utilities menu

MIPAV provides a number of utilities that you can use to perform standard image-processing tasks such as converting image datasets to another image type, transforming images by copying, cropping, or rotating them, and changing image datasets by adding, removing, or reordering slices. To perform more complex tasks, MIPAV provides algorithms, which are covered in Volume 2 of the ''User's Guide''. This chapter explores the standard tasks.

To access the standard image-processing tasks, you use the commands (refer to Table 1) on the Utilities menu in the MIPAV window.

{| border="1" cellpadding="5"
|+  <div class="TableTitle">Table 1.  Standard tasks provided through commands on the Utilities menu in the MIPAV window </div>
|- bgcolor="#CCCCCC"
! rowspan="2" colspan="1" |
<div class="CellHeading">Task</div>
! rowspan="2" colspan="1" |
<div class="CellHeading">Command</div>
! rowspan="1" colspan="3" |
<div class="CellHeading">Scalar*</div>
! rowspan="1" colspan="3" |
<div class="CellHeading">RGB</div>
|- bgcolor="#CCCCCC"
!
<div class="CellHeading">2D</div>
!
<div class="CellHeading">3D</div>
!
<div class="CellHeading">4D</div>
!
<div class="CellHeading">2D</div>
!
<div class="CellHeading">3D</div>
!
<div class="CellHeading">4D</div>
|-
| rowspan="1" colspan="8" |
<div class="CellHeading">4D</div>
|-
|
<div class="CellBody">"Converting 3D to 4D images and vise versa" </div>
|
<div class="CellBody">Convert 3D to 4D</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|-
|
<div class="CellBody"> </div>
|
<div class="CellBody">Convert 4D to 3D</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Convert 4D to RGB"</div>
|
<div class="CellBody">Convert 4D to RGB</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Extracting 3D subset from 4D" </div>
|
<div class="CellBody">Extracting 3D Subset from 4D</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Removing time volumes" </div>
|
<div class="CellBody">Remove Time Volumes</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Swapping the third and fourth dimensions" </div>
|
<div class="CellBody">Swap DIMS 3 &lt;-&gt; 4</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Adding image margins"</div>
|
<div class="CellBody">Add Image Margins</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">Copying images</div>
|
<div class="CellBody">Clone (copy)</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
| rowspan="1" colspan="8" |
<div class="CellHeading">Conversion Tools</div>
|-
|
<div class="CellBody">"Converting image datasets to different data types" </div>
|
<div class="CellBody">Convert Type</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|-
|
<div class="CellBody">"Converting grayscale images to RGB images" </div>
|
<div class="CellBody">Grays to RGB</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|-
|
<div class="CellBody">"Converting RGB datasets to grayscale datasets"</div>
|
<div class="CellBody">RGB to Gray</div> <div class="CellBody">RGB to Grays</div> <div class="CellBody">RGB to HSB</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Correcting image spacing"</div>
|
<div class="CellBody">Correct Image Spacing</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|-
|
<div class="CellBody">"Cropping images"</div>
|
<div class="CellBody">Crop Using Parameters</div> <div class="CellBody">Crop using VOI</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Masking (filling) images"</div>
|
<div class="CellBody">Fill Image</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|-
| rowspan="1" colspan="8" |
<div class="CellHeading">"Flipping images"</div>
|-
|
<div class="CellBody"></div>
|
<div class="CellBody">Flip &gt; Horizontal</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody"> </div>
|
<div class="CellBody">Flip &gt; Vertical</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody"> </div>
|
<div class="CellBody">Flip&gt;In Depth (invert slice order)</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Image Calculator"</div>
|
<div class="CellBody">Image Calculator</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Image Calculator-Bulk Images"</div>
|
<div class="CellBody">Image Calculator-Bulk Images</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Image Math"</div>
|
<div class="CellBody">Image Math</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Inverting the image"</div>
|
<div class="CellBody">Invert</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Matching images"</div>
|
<div class="CellBody">Match Images</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|-
|
<div class="CellBody">"Adding noise to images"</div>
|
<div class="CellBody">Noise</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|-
|
<div class="CellBody">"Pad" </div>
|
<div class="CellBody">Pad</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|-
|
<div class="CellBody">"Quantify Mask"</div>
|
<div class="CellBody">Quantify Using Mask</div> <div class="CellBody">Quantify Mask(s)</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|-
|
<div class="CellBody">"Replacing pixel/voxel value in images"</div>
|
<div class="CellBody">Replace Pixe/Voxel Value</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
| rowspan="6" colspan="1" |
<div class="CellBody"><span style="font-style: normal; text-decoration: none; text-transform: none; vertical-align: baseline">'''<font color="#000000">"Rotating images" </font>'''</span></div>
|
<div class="CellBody">Rotate -&gt; X axis 90</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">Rotate -&gt; X axis <br />-90</div>
|
<div class="CellBody"></div>
|
<div class="CellBody"> </div>
|
<div class="CellBody"> </div>
|
<div class="CellBody"> </div>
|
<div class="CellBody"></div>
|
<div class="CellBody"> </div>
|-
|
<div class="CellBody">Rotate.&gt; Y axis -90</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">Rotate -&gt; Y axis 90</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">Rotate -&gt; Z axis 90</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">Rotate -&gt; Z axis <br />-90</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
| rowspan="1" colspan="8" |
<div class="CellHeading">Slice Tools</div>
|-
|
<div class="CellBody"> "Concatenating images"</div>
|
<div class="CellBody">Concatenate</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Extracting slices/volumes"</div>
|
<div class="CellBody">Extract Slices/Volumes</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Insert Missing Slices" </div>
|
<div class="CellBody">Insert Missing Slices</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Inserting slices into image datasets" </div>
|
<div class="CellBody">Insert Slice</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Pad slices to power of 2"</div>
|
<div class="CellBody">Pad Slices to power of 2</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|-
|
<div class="CellBody">"Randomizing image (slice) order" </div>
|
<div class="CellBody">Randomize Slice Order</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Removing images (slices) from datasets" </div>
|
<div class="CellBody">Remove Slices</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Replace blanks with averages" </div>
|
<div class="CellBody">Replace blanks with averages</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">N</div>
|-
|
<div class="CellBody">"Replace Slices"</div>
|
<div class="CellBody">Replace Slices</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">N</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
|
<div class="CellBody">"Subtract VOI Background"</div>
|
<div class="CellBody">Subtract VOI background</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|
<div class="CellBody">Y</div>
|-
| rowspan="1" colspan="8" |
<div class="CellBody"><nowiki>*Scalar includes the following image types: boolean, byte, unsigned byte, short, unsigned short, integer, long, float, and double.</nowiki></div>
|}



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