Documentation/Nightly/SlicerApplication/SupportedDataFormat - Revision history

Lasso: Replaced content with "{{documentation/versioncheck}} {{documentation/banner | text = [https://slicer.readthedocs.io/en/latest/user_guide/supported_data_formats.html Th..."

2020-08-21T16:45:49Z

Replaced content with "<noinclude>{{documentation/versioncheck}} </noinclude> {{documentation/banner | text = [https://slicer.readthedocs.io/en/latest/user_guide/supported_data_formats.html Th..."

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Lasso: /* File formats supported by Slicer {{documentation/version}} */

2019-06-17T17:56:36Z

File formats supported by Slicer {{documentation/version}}

Lasso: /* File formats supported by Slicer {{documentation/version}} */

2018-09-29T13:11:44Z

File formats supported by Slicer {{documentation/version}}

Agirault: add volumetric mesh support

2017-02-01T15:16:43Z

add volumetric mesh support

Lasso at 15:50, 11 October 2016

2016-10-11T15:50:25Z

Lasso at 15:45, 11 October 2016

2016-10-11T15:45:02Z

Lasso at 15:44, 11 October 2016

2016-10-11T15:44:23Z

Pieper at 15:36, 18 May 2015

2015-05-18T15:36:31Z

Lasso at 14:24, 18 May 2014

2014-05-18T14:24:36Z

Lasso at 14:04, 18 May 2014

2014-05-18T14:04:55Z

@@ Line 58: / Line 58: @@
 |bgcolor="LightGreen" align="center"|yes
 |bgcolor="LightGreen" align="center"|yes
-| Coordinate system: as defined in the file header (usually LPS)
+| Coordinate system: as defined in the file header (usually LPS). Segmentation nodes are stored usually with .seg.nrrd extension, as 4D volumes (each 3D volume corresponds to a segment) with some [https://apidocs.slicer.org/master/classvtkMRMLSegmentationStorageNode.html additional custom fields].
 |-
 | [http://www.itk.org/Wiki/MetaIO/Documentation MetaImage]

@@ Line 51: / Line 51: @@
 | .dcm ...
 |bgcolor="LightGreen" align="center"|yes<ref>For a number of dMRI formats we recommend use of the [[Documentation/{{documentation/version}}/Modules/DicomToNrrdConverter|DICOM to NRRD converter]] before loading the data into Slicer.</ref>
-|bgcolor="#f34a33" align="center"|no<ref>Limited support for writing image volumes in DICOM format is provided by the [[Documentation/{{documentation/version}}/Modules/CreateDICOMSeries|Create DICOM Series]] module. Support of writing DICOM Segmentation Objects is provided by the [[Documentation/{{documentation/version}}/Extensions/Reporting|Reporting extension]]</ref>
+|bgcolor="LightGreen" align="center"|yes (some data types)<ref>Image volumes, RT structure sets, dose volumes, etc. can be exported using [[Documentation/{{documentation/version}}/Modules/DICOM#DICOM_export|DICOM module's export feature]]. Limited support for writing image volumes in DICOM format is provided by the [[Documentation/{{documentation/version}}/Modules/CreateDICOMSeries|Create DICOM Series]] module. Support of writing DICOM Segmentation Objects is provided by the [[Documentation/{{documentation/version}}/Extensions/Reporting|Reporting extension]]</ref>
 |[[Documentation/{{documentation/version}}/Modules/DICOM|DICOM]], [[Documentation/{{documentation/version}}/Modules/DicomToNrrdConverter|DICOMToNRRDConverter]], [[Documentation/{{documentation/version}}/Modules/CreateDICOMSeries|CreateDICOMSeries]], [[Documentation/{{documentation/version}}/Extensions/Reporting|Reporting extension]]. Coordinate system: LPS (specified by the DICOM standard)
 |-

@@ Line 160: / Line 160: @@
 |-
 | [http://www.vtk.org/VTK/img/file-formats.pdf VTK XML Polygonal Data]
 | .vtp
 |bgcolor="LightGreen" align="center"|yes

@@ Line 221: / Line 221: @@
 ! scope="col" colspan="4" style="border-bottom: 1px solid grey;border-top: 1px solid grey;"| Transforms
 ! scope="col" style="border-top: 1px solid grey;"| [[Documentation/{{documentation/version}}/Modules/Transforms|Transforms]]
 |-
 | [http://www.itk.org/ItkSoftwareGuide.pdf ITK Transform]
@@ Line 226: / Line 232: @@
 |bgcolor="LightGreen" align="center"|yes
 |bgcolor="LightGreen" align="center"|yes
-| For linear and b-spline transforms. Coordinate system: LPS
+| For linear, b-spline, and thin-plate spline, and composite transforms. Coordinate system: LPS
 |-
 | [http://www.mathworks.com/help/pdf_doc/matlab/matfile_format.pdf Matlab MAT-File]

@@ Line 175: / Line 175: @@
 |bgcolor="LightGreen" align="center"|yes
 |bgcolor="LightGreen" align="center"|yes
+| Coordinate system: RAS
 |-
 | Freesurfer

← Older revision		Revision as of 15:36, 18 May 2015
Line 281:		Line 281:

	<references/>		<references/>
		+
		+	= What if your data is not supported? =
		+
		+	If you have a file of binary data and you know the data is uncompressed and you know the way it is laid out in memory, then one way to load it in Slicer is to create a .nhdr file that points to the binary file.
		+
		+	A way to get started is to download sample data that is similar to your data (e.g. a CT or MR). Then save that data in .nhdr format and start editing the file to match your data.
		+
		+	Refer to the [http://teem.sourceforge.net/nrrd NRRD format documentation] to see what the keys mean.

	=References=		=References=

@@ Line 64: / Line 64: @@
 |bgcolor="LightGreen" align="center"|yes
 |bgcolor="LightGreen" align="center"|yes
-| Coordinate system: LPS (orientation information in the file header is ignored)
+| Coordinate system: LPS<ref>According to [http://www.itk.org/Wiki/Proposals:Orientation#Current_ITK_Usage_and_sources_of_confusion MetaIO naming scheme] DICOM 'LPS' direction is 'RAI'.</ref> (AnatomicalOrientation in the file header is ignored)
 |-
 | [http://www.vtk.org/VTK/img/file-formats.pdf VTK]

@@ Line 19: / Line 19: @@
 |bgcolor="LightGreen" align="center"|yes
 |bgcolor="LightGreen" align="center"|yes
-|MRML file is a xml-formatted text file with scene metadata and pointers to externally stored data files.  [[Documentation/{{documentation/version}}/Developers/MRML|Data Model]]
+|MRML file is a xml-formatted text file with scene metadata and pointers to externally stored data files. See [[Documentation/{{documentation/version}}/Developers/MRML|Data Model]]. Coordinate system: RAS
 |-
 | MRB (Medical Reality Bundle)