Difference between revisions of "Documentation/Nightly/Modules/AstroVolume"

From Slicer Wiki
Jump to: navigation, search
m (Text replacement - "\[http:\/\/www\.slicer\.org\/slicerWiki\/index\.php\/([^ ]+) ([^]]+)]" to "$2")
 
(46 intermediate revisions by one other user not shown)
Line 3: Line 3:
 
{{documentation/{{documentation/version}}/module-header}}
 
{{documentation/{{documentation/version}}/module-header}}
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
−
[[File:ERCIcon.png|European Research Council]]
+
[[File:ERCIcon.png|300px|European Research Council]]
−
[[File:Kapteyn logo1.png|Kapteyn Astronomical Institute]]
+
[[File:Kapteyn logo1.png|500px|Kapteyn Astronomical Institute]]
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
 
{{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}
 
{{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}
 
{{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}
 
{{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}
 
{{documentation/{{documentation/version}}/module-introduction-row}}
 
{{documentation/{{documentation/version}}/module-introduction-row}}
−
Authors:<br> <b>Davide Punzo</b> (Kapteyn Astronomical Institute, University of Groningen), <b>Thijs van der Hulst</b> (Kapteyn Astronomical Institute, University of Groningen), <b>Jos Roerdink</b> (Johann Bernoulli Institute for Mathematics and Computer Science, University of Groningen).<br>
+
Authors:<br>
−
Acknowledgements: <br>
+
<b>Davide Punzo</b> (Kapteyn Astronomical Institute, University of Groningen) <br>
−
We thanks Steve Pieper (Isomics), Jean-Christophe Fillion-Robin (Kitware) and Andras Lasso (PerkLab, Queen's) for their feedback and support.<br>
+
<b>Thijs van der Hulst</b> (Kapteyn Astronomical Institute, University of Groningen) <br>
−
This work was supported by the European Research Council under the European Union's Seventh Framework Programme (FP/2007-2013)/ERC Grant Agreement nr. 291-531.<br>
+
<b>Jos Roerdink</b> (Johann Bernoulli Institute for Mathematics and Computer Science, University of Groningen) <br> <br>
 +
 
 +
Contributors: <br>
 +
<b>Jean-Christophe Fillion-Robin</b> (Kitware) <br>
 +
<b>Steve Pieper</b> (Isomics) <br>
 +
<b>Andras Lasso</b> (PerkLab, Queen's) <br> <br>
 +
 
 +
Acknowledgements: <br>  
 +
This work was supported by the European Research Council under the European Union's Seventh Framework Programme (FP/2007-2013)/ERC Grant Agreement nr. 291-531.<br> <br>
  
 
Contacts:
 
Contacts:
Line 18: Line 26:
 
* Thijs van der Hulst, <email>J.M.van.der.Hulst@astro.rug.nl</email>
 
* Thijs van der Hulst, <email>J.M.van.der.Hulst@astro.rug.nl</email>
 
* Jos Roerdink <email>j.b.t.m.roerdink@rug.nl</email>
 
* Jos Roerdink <email>j.b.t.m.roerdink@rug.nl</email>
−
[http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/SlicerAstro Back to SlicerAstro home]
+
[[Documentation/Nightly/Extensions/SlicerAstro|Back to SlicerAstro home]]
 
{{documentation/{{documentation/version}}/module-introduction-end}}
 
{{documentation/{{documentation/version}}/module-introduction-end}}
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
 
{{documentation/{{documentation/version}}/module-section|Module Description}}
 
{{documentation/{{documentation/version}}/module-section|Module Description}}
−
The {{documentation/modulename}} manage Astro Volumes. <br><br>
+
The {{documentation/modulename}} can read/write FITS file (astronomical data format) and handle the color function and display of Astro Volumes. <br><br>
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
−
{{documentation/{{documentation/version}}/module-section|Tutorials}}
 
−
* Coming soon...
 
  
 
{{documentation/{{documentation/version}}/module-section|Panels and their use}}
 
{{documentation/{{documentation/version}}/module-section|Panels and their use}}
−
The interface is composed by three principal blocks
+
<br>
−
* Volume information: Control the display coordiantes <br><br>
+
<h4>Handling the loading and writing of FITS files</h4><br>
−
[[File:SlicerAstroWiki4.png]|250px|]
+
[[File:AstroLoading.png|750 px]]
−
<br><br>
+
 
−
* Dispaly: Control the 2-D Views color function <br><br>
+
<br>
−
[[File:SlicerAstroWiki5.png]|250px|]
+
 
−
<br><br>
+
<h4> MRML nodes that store the data-cube and the FITS keywords in the 3DSlicer object-tree (Data module) </h4><br>
−
* Rendering: Control the 3-D Views color transfer function and parameters for the rendering <br><br>
 
−
[[File:SlicerAstroWiki6.png]|250px|]
 
−
<br><br>
 
  
 +
[[File:AstroData.png|500 px]]
 +
 +
<br>
 +
<h4>The control of the display coordinates</h4><br>
 +
[[File:AstroVolumeInformation.png|1000 px]]
 +
 +
<br>
 +
<h4> The display of Beam information in the XY view </h4><br>
 +
 +
[[File:AstroHistogram.png|1000 px]]
 +
 +
<br>
 +
<h4>The control of the 2D color transfer function</h4><br>
 +
[[File:Astro2DColorFunction1.png|1000 px]]
 +
[[File:Astro2DColorFunction2.png|1000 px]]
 +
[[File:Astro2DColorFunction3.png|1000 px]]
 +
[[File:Astro2DColorFunction4.png|1000 px]]
 +
 +
<br>
 +
<h4> The display of the Astronomical World Coordinate (WCS) and Data Probing for 2D views </h4><br>
 +
 +
[[File:Astro2DAxes1.png|1000 px]]
 +
 +
<br>
 +
<h4> The display of Beam information in the XY view </h4><br>
 +
 +
[[File:AstroBeam.png|1000 px]]
 +
 +
<br>
 +
<h4>The control of the 3D color transfer function</h4><br>
 +
[[File:Astro3DColorFunction.png|1000 px]]
 +
 +
<br>
 +
<h4>Tools to convert mask from FITS files (e.g., generated by SoFiA) into segmentations objects and viceversa</h4><br>
 +
[[File:AstroMask2.png|1000 px]]
 +
[[File:AstroMask6.png|1000 px]]
 +
 +
<!-- ---------------------------- -->
 +
 +
{{documentation/{{documentation/version}}/module-section|Astro segmentation editor effect}}
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
 +
 +
<br>
 +
<h4>AstroCloudLasso Effect</h4><br>
 +
The AstroCloudLasso segmentation editor effect is a tool to interactively perform a 3D selection.
 +
This 3D selection (the segmentation) can be used either for:
 +
 +
1. changing an imported mask generated by automated algorithms (e.g., source finders);<br>
 +
2. providing an input mask to a variety of tools in SlicerAstro (e.g., MomentMaps module and Modeling module).<br>
 +
 +
[[File:AstroMask3.png|1000 px]]
 +
[[File:AstroMask4.png|1000 px]]
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->
 
{{documentation/{{documentation/version}}/module-section|References}}
 
{{documentation/{{documentation/version}}/module-section|References}}
−
 
+
<pre>
 +
@ARTICLE{2017A&C....19...45P,
 +
  author = {{Punzo}, D. and {van der Hulst}, J.~M. and {Roerdink}, J.~B.~T.~M. and
 +
{Fillion-Robin}, J.~C. and {Yu}, L.},
 +
    title = "{SlicerAstro: A 3-D interactive visual analytics tool for HI data}",
 +
  journal = {Astronomy and Computing},
 +
archivePrefix = "arXiv",
 +
  eprint = {1703.06651},
 +
primaryClass = "astro-ph.IM",
 +
keywords = {Radio lines: galaxies, Scientific visualization, Visual analytics, Agile software development, Object oriented development, Empirical software validation},
 +
    year = 2017,
 +
    month = apr,
 +
  volume = 19,
 +
    pages = {45-59},
 +
      doi = {10.1016/j.ascom.2017.03.004},
 +
}
 +
</pre>
  
 
<!-- ---------------------------- -->
 
<!-- ---------------------------- -->

Latest revision as of 03:36, 27 November 2019

Home < Documentation < Nightly < Modules < AstroVolume


For the latest Slicer documentation, visit the read-the-docs.


European Research Council Kapteyn Astronomical Institute

Introduction and Acknowledgements

Authors:
Davide Punzo (Kapteyn Astronomical Institute, University of Groningen)
Thijs van der Hulst (Kapteyn Astronomical Institute, University of Groningen)
Jos Roerdink (Johann Bernoulli Institute for Mathematics and Computer Science, University of Groningen)

Contributors:
Jean-Christophe Fillion-Robin (Kitware)
Steve Pieper (Isomics)
Andras Lasso (PerkLab, Queen's)

Acknowledgements:
This work was supported by the European Research Council under the European Union's Seventh Framework Programme (FP/2007-2013)/ERC Grant Agreement nr. 291-531.

Contacts:

  • Davide Punzo, <email>punzodavide@hotmail.it</email>; <email>D.Punzo@astro.rug.nl</email>
  • Thijs van der Hulst, <email>J.M.van.der.Hulst@astro.rug.nl</email>
  • Jos Roerdink <email>j.b.t.m.roerdink@rug.nl</email>

Back to SlicerAstro home

Module Description

The AstroVolume can read/write FITS file (astronomical data format) and handle the color function and display of Astro Volumes.


Panels and their use


Handling the loading and writing of FITS files


AstroLoading.png


MRML nodes that store the data-cube and the FITS keywords in the 3DSlicer object-tree (Data module)


AstroData.png


The control of the display coordinates


AstroVolumeInformation.png


The display of Beam information in the XY view


AstroHistogram.png


The control of the 2D color transfer function


Astro2DColorFunction1.png Astro2DColorFunction2.png Astro2DColorFunction3.png Astro2DColorFunction4.png


The display of the Astronomical World Coordinate (WCS) and Data Probing for 2D views


Astro2DAxes1.png


The display of Beam information in the XY view


AstroBeam.png


The control of the 3D color transfer function


Astro3DColorFunction.png


Tools to convert mask from FITS files (e.g., generated by SoFiA) into segmentations objects and viceversa


AstroMask2.png AstroMask6.png


Astro segmentation editor effect


AstroCloudLasso Effect


The AstroCloudLasso segmentation editor effect is a tool to interactively perform a 3D selection. This 3D selection (the segmentation) can be used either for:

1. changing an imported mask generated by automated algorithms (e.g., source finders);
2. providing an input mask to a variety of tools in SlicerAstro (e.g., MomentMaps module and Modeling module).

AstroMask3.png AstroMask4.png

References

@ARTICLE{2017A&C....19...45P,
   author = {{Punzo}, D. and {van der Hulst}, J.~M. and {Roerdink}, J.~B.~T.~M. and 
	{Fillion-Robin}, J.~C. and {Yu}, L.},
    title = "{SlicerAstro: A 3-D interactive visual analytics tool for HI data}",
  journal = {Astronomy and Computing},
archivePrefix = "arXiv",
   eprint = {1703.06651},
 primaryClass = "astro-ph.IM",
 keywords = {Radio lines: galaxies, Scientific visualization, Visual analytics, Agile software development, Object oriented development, Empirical software validation},
     year = 2017,
    month = apr,
   volume = 19,
    pages = {45-59},
      doi = {10.1016/j.ascom.2017.03.004},
}


Retrieved from "https://www.slicer.org/w/index.php?title=Documentation/Nightly/Modules/AstroVolume&oldid=62437"