Difference between revisions of "Documentation/4.1/SlicerApplication/LookupTables"
From Slicer Wiki
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file:Shade-LUTs-2012-02-18.png|''Shade LUTs'' | file:Shade-LUTs-2012-02-18.png|''Shade LUTs'' | ||
file:Tint-LUTs-2012-02-18.png|''Tint LUTs'' | file:Tint-LUTs-2012-02-18.png|''Tint LUTs'' | ||
| − | file:Freesurfer-LUTs-2012-02-18.png|''Freesurfer LUTs''<br> [[ | + | file:Freesurfer-LUTs-2012-02-18.png|''Freesurfer LUTs''<br> [[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/Freesurfer_labels|Freesurfer Labels]] |
file:PET-LUTs-2012-02-18.png|''PET LUTs'' | file:PET-LUTs-2012-02-18.png|''PET LUTs'' | ||
file:CartilageMRI-LUTs-2012-02-18.png|''Cartilage MRI LUTs'' | file:CartilageMRI-LUTs-2012-02-18.png|''Cartilage MRI LUTs'' | ||
| − | file:Labelmap-LUTs-2012-02-18.png|''Labelmap LUTs''<br> [[ | + | file:Labelmap-LUTs-2012-02-18.png|''Labelmap LUTs''<br> [[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/2010BrainLabels|2010 Brain Labels]]: Label colors for brain segmentation<br> [[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/2010LabelColors|2010 Label Colors]]: Colors for a generic labelmap |
| − | file:GenericLabel-LUTs-2012-02-18.png|''Generic Labelmap LUTs''<br> [[Documentation/4.1/SlicerApplication/LookupTables/GenericAnatomyColors| | + | file:GenericLabel-LUTs-2012-02-18.png|''Generic Labelmap LUTs''<br> [[Documentation/4.1/SlicerApplication/LookupTables/GenericAnatomyColors|Generic Anatomy Colors]]: default LUT<br> [[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/GenericColors|Generic Colors]] |
</gallery> | </gallery> | ||
==LUTs for Charting== | ==LUTs for Charting== | ||
| − | Please see the [[ | + | Please see the [[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/GenericChartColors|Generic Chart Colors]] page. |
==LUTs in Slicer== | ==LUTs in Slicer== | ||
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*[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/Freesurfer_labels|Freesurfer Labels]] | *[[Documentation/{{documentation/version}}/SlicerApplication/LookupTables/Freesurfer_labels|Freesurfer Labels]] | ||
| − | + | ==Useful Links== | |
| + | *Converting wiki pages to and from LUTs | ||
| + | **Web-based tools that convert between wiki and Slicer color files can be found at http://labelpage.halle.us/ | ||
| + | *Creating custom palettes: http://colorbrewer2.org/ | ||
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{{documentation/{{documentation/version}}/slicerapplication-footer}} | {{documentation/{{documentation/version}}/slicerapplication-footer}} | ||
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Revision as of 20:42, 28 August 2012
Home < Documentation < 4.1 < SlicerApplication < LookupTables
Overview
Slicer offers a variety of predefined lookup tables (LUT). Volumes can be associated with a LUT in the volumes module. Also, see the Colors Module.
LUTs
Discrete LUTs
Shade LUTs
Tint LUTs
Freesurfer LUTs
Freesurfer Labels
PET LUTs
Cartilage MRI LUTs
Labelmap LUTs
2010 Brain Labels: Label colors for brain segmentation
2010 Label Colors: Colors for a generic labelmap
Generic Labelmap LUTs
Generic Anatomy Colors: default LUT
Generic Colors
LUTs for Charting
Please see the Generic Chart Colors page.
LUTs in Slicer
You can review and edit LUTs in Slicer via the Colors module.
Slicer ColorPicker
The slicer colorpicker allows to select colors from a label map and to assign them to objects such as surface models or streamlines.
LUTs for Slicer4
Brain Atlas LUTs
- 2010 Brain Atlas: Good example of the wiki-based labelpage format, including multiple tables.
- 2012 Brain Atlas: Good example of the wiki-based labelpage format, including multiple tables.
- Tractography Colors LUT for WM Parcellation.
Custom LUTs
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.
| integer_label | text_label | color | notes |
|---|---|---|---|
| 0 | background | rgba(0,0,0,0) | |
| 1 | tissue | rgb(128,174,128) | Default label for bodily tissues |
| 2 | bone | rgb(241,214,145) | |
| 3 | skin | rgb(177,122,101) | |
| 4 | connective tissue | rgb(111,184,210) |
- Standard color names and values: http://www.w3.org/TR/SVG/types.html#ColorKeywords
- Go here to create a text file in Slicer LUT format.
- A custom LUT can be loaded into Slicer like any other file.
Custom LUT Examples
Useful Links
- Converting wiki pages to and from LUTs
- Web-based tools that convert between wiki and Slicer color files can be found at http://labelpage.halle.us/
- Creating custom palettes: http://colorbrewer2.org/
