|
|
| (34 intermediate revisions by 2 users not shown) |
| Line 1: |
Line 1: |
| − | == Overview ==
| + | <big>'''Note:''' We are migrating this content to the slicer.org domain - <font color="orange">The newer page is [https://www.slicer.org/wiki/Modules:Volumes:Diffusion_Editor-Documentation here]</font></big> |
| − | The goal of this project is to add a Gradient Editor for DWI data in the Volumes module of Slicer3.
| |
| − | As the documentation of gradients in dicom data is not standardized, MRI scanners handle them differently. Because of that there is a big need to add/modify gradients manually.
| |
| − | | |
| − | == Interface ==
| |
| − | This screenshots show the interface and its changes during the last months.
| |
| − | | |
| − | <gallery caption="Interface" widths="150px" heights="150px" perrow="4">
| |
| − | Image:DWI_Gradient_Editor_v4.jpg|integrated in Slicer3 trunk, some GUI elements are no longer necessary
| |
| − | Image:DWI_Gradient_Editor_v3.jpg
| |
| − | Image:DWI_Gradient_Editor_v2.jpg|integrated in Slicer3 branch
| |
| − | Image:DWI_Gradient_Editor.jpg|1st Version (tcl)
| |
| − | </gallery>
| |
| − | | |
| − | == How to use the editor==
| |
| − | *1.Step: Generate a Nrrd-header of your DWI data. Use the "Dicom to Nrrd" module in Slicer3 (Modules->Converters->Dicom to Nrrd).
| |
| − | **-> A .nhdr file will be created.
| |
| − | *2.Step: Use the output (.nhdr file) as an input of the Volumes module.
| |
| − | **-> The Gradient Editor will be enabled. If you load any other type of dataset the editor will be disabled.
| |
| − | | |
| − | === What you can do with the Gradient Editor===
| |
| − | | |
| − | #'''Choose measurement frame'''.
| |
| − | ## '''Negative''': Select the columns you want to negative.
| |
| − | ## '''Swap''': Select two columns you want to swap.
| |
| − | ## '''Rotate''': Select one column you want to rotate by an angle you can choose from a given set of values or set yourself.
| |
| − | ## Set your own values.
| |
| − | #'''Define gradients'''.
| |
| − | ## If the .nhdr file has the information about the gradients, the editor will put them in the text field.
| |
| − | ## You can copy/paste your own gradients in the text field.
| |
| − | ## You can load gradients from a plain text file or .nhdr file.
| |
| − | #'''Run test'''.
| |
| − | ## Add a Fiducial List. To see if the chosen parameters are reasonable, you can run a test that automatically
| |
| − | ### computes the Tensor and
| |
| − | ### visualizes them by Tractography Seeding. (both with standard values)
| |
| − | #'''Cancel''': All parameters are restored to original.
| |
| − | | |
| − | == Status / Implementation Progress == | |
| − | The editor is now successfully integrated in the Volumes module of the trunk version of Slicer3. | |
| − | *measurement frame (gui/load/change/save): 90%
| |
| − | *gradients (gui/load/change/save): 50%
| |
| − | *test (gui/...): 5%
| |
| − | *writing master thesis: 0%
| |
| − | | |
| − | == Additional Information ==
| |
| − | | |
| − | Nrrd format: [http://wiki.na-mic.org/Wiki/index.php/NAMIC_Wiki:DTI:Nrrd_format http://wiki.na-mic.org/Wiki/index.php/NAMIC_Wiki:DTI:Nrrd_format]
| |
| − | | |
| − | DTMRI: [http://wiki.na-mic.org/Wiki/index.php/Slicer3:DTMRI http://wiki.na-mic.org/Wiki/index.php/Slicer3:DTMRI]
| |
| − | | |
| − | DICOM for DWI and DTI : [http://wiki.na-mic.org/Wiki/index.php/NAMIC_Wiki:DTI:DICOM_for_DWI_and_DTI http://wiki.na-mic.org/Wiki/index.php/NAMIC_Wiki:DTI:DICOM_for_DWI_and_DTI]
| |
