https://www.slicer.org/w/index.php?action=history&feed=atom&title=Documentation%2F4.8%2FSlicerApplication%2FLookupTablesDocumentation/4.8/SlicerApplication/LookupTables - Revision history2026-04-11T16:36:01ZRevision history for this page on the wikiMediaWiki 1.33.0https://www.slicer.org/w/index.php?title=Documentation/4.8/SlicerApplication/LookupTables&diff=55919&oldid=prevUpdateBot: Nightly -> 4.82017-10-18T07:08:14Z<p>Nightly -> 4.8</p>
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=Overview=<br />
Slicer offers a variety of predefined lookup tables (LUT). Volumes can be associated with a LUT in the volumes module. Also, see the [[Documentation/{{documentation/version}}/Modules/Colors|Colors Module]].<br />
<br />
==LUTs==<br />
<gallery widths=175px><br />
file:DiscreteLUTs-2012-02-18.png|''Discrete LUTs''<br />
file:Shade-LUTs-2012-02-18.png|''Shade LUTs''<br />
file:Tint-LUTs-2012-02-18.png|''Tint LUTs''<br />
file:Freesurfer-LUTs-2012-02-18.png|''Freesurfer LUTs''<br>-[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/Freesurfer_labels|Freesurfer Labels documentation]]<br />
file:PET-LUTs-2012-02-18.png|''PET LUTs''<br />
file:CartilageMRI-LUTs-2012-02-18.png|''Cartilage MRI LUTs''<br />
file:Slicer43-Colors-FromFile.jpeg|''Labelmap LUTs''<br>-[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/2010BrainLabels|Brain Labels]]: Label colors for brain segmentation<br>-[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/2010LabelColors|Label Colors]]: Colors for a generic labelmap<br />
file:GenericLabel-LUTs-2012-02-18.png|''Generic Labelmap LUTs''<br>-[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/GenericAnatomyColors|Default Generic Anatomy Colors]]<br>-[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/GenericColors|Generic Colors]]<br />
</gallery><br />
<br />
==LUTs for Charting==<br />
Please see the [[Slicer4:2012_GenericChartColors|Generic Chart Colors]] page.<br />
<br />
==LUTs in Slicer==<br />
You can review and edit LUTs in Slicer via the [[Documentation/{{documentation/version}}/Modules/Colors|Colors module]]. <br />
=Slicer ColorPicker=<br />
The slicer colorpicker allows to select colors from a label map and to assign them to objects such as surface models or streamlines.<br />
[[Image:SlicerColorPicker-2012-02-18.png|200px|left]]<br />
<br />
==Custom LUTs==<br />
It is relatively easy to create custom LUTs by creating a table with the colors on the wiki. This allows to select specific names and colors when segmenting. See below for an example.<br />
<br />
{| class="wikitable sortable labelpage labelpagetable" border="1"<br />
! integer_label<br />
! text_label<br />
! color<br />
! notes<br />
|-<br />
|0<br />
|background<br />
|style="background:rgb(0,0,0);color:white"|rgba(0,0,0,0)<br />
|<br />
|-<br />
|1<br />
|tissue<br />
|style="background:rgb(128,174,128)"|rgb(128,174,128)<br />
| Default label for bodily tissues<br />
|-<br />
|2<br />
|bone<br />
|style="background:rgb(241,214,145)"|rgb(241,214,145)<br />
|<br />
|-<br />
|3<br />
|skin<br />
|style="background:rgb(177,122,101)"|rgb(177,122,101)<br />
|<br />
|-<br />
|4<br />
|connective tissue<br />
|style="background:rgb(111,184,210)"|rgb(111,184,210)<br />
|<br />
|-<br />
|}<br />
<br />
* Standard color names and values: http://www.w3.org/TR/SVG/types.html#ColorKeywords<br />
* Go [http://labelpage.halle.us/ here] to create a text file in Slicer LUT format.<br />
* A custom LUT can be loaded into Slicer like any other file.<br />
<br />
===Custom LUT Examples===<br />
<br />
*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/AbdominalAtlasLabels|Abdominal Atlas Labels]]<br />
*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/HNAtlasLabels|Head and Neck Atlas Labels]]<br />
*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/HNLabels|Head and Neck Muscles Labels]]<br />
*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/FemalePelvisColors|Female Pelvis Labels]]<br />
*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/Freesurfer_labels|Freesurfer Labels]]<br />
*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/KneeAtlasLabels|Knee Atlas Labels]]<br />
*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/Lauras-labels|Laura's Labels]]<br />
*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/Mori-Atlas_labels|Mori-Atlas Labels]]<br />
*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/PCampReview|PCampReview Labels]]<br />
====Brain Atlas LUTs====<br />
*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/CCA:Atlases:MRI_Brain_Atlas_2012:ColorFile|2012 Multi-modality MRI-based Atlas of the Brain]]: Good example of the wiki-based labelpage format, including multiple tables.<br />
*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/TractographyColors|Tractography Colors]]: LUT for White Matter Parcellation.<br />
*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/2012SPL-BrainAtlasColorFile|2012 SPL Brain Atlas Colors]]<br />
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==Useful Links==<br />
*Converting wiki pages to and from LUTs<br />
**Web-based tools that convert between wiki and Slicer color files can be found at http://labelpage.halle.us/<br />
*Creating custom palettes: http://colorbrewer2.org/<br />
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