Difference between revisions of "Slicer3:FAQ"
From Slicer Wiki
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| − | = User FAQ = | + | = User FAQ : installation & general use = |
== Is slicer3 ready for end users yet? == | == Is slicer3 ready for end users yet? == | ||
| − | |||
Yes! See [http://slicer.org the home page]. | Yes! See [http://slicer.org the home page]. | ||
== DLL Problems on Windows == | == DLL Problems on Windows == | ||
| − | |||
''I just download the 3D Slicer binaries for Windows and unpacked it. When I doubleclicked the file "slice2-win32-x86.ext", it gave out the error message'' | ''I just download the 3D Slicer binaries for Windows and unpacked it. When I doubleclicked the file "slice2-win32-x86.ext", it gave out the error message'' | ||
| − | |||
''can't find package vtk while executing "package require vtk" invoked from within "set::SLICER(VTK_VERSION) [package require vtk]" (file "C:/slicer2/Base/tck/Go.tck" line 483). '' | ''can't find package vtk while executing "package require vtk" invoked from within "set::SLICER(VTK_VERSION) [package require vtk]" (file "C:/slicer2/Base/tck/Go.tck" line 483). '' | ||
We've seen this sort of thing happen when you have incompatible dll's installed. E.g. so programs will install a vtkCommon.dll into your window system folder and windows tries to use it instead of the one that comes with windows. You could try doing a search for vtk*.dll in your system and remove or rename any that are not in slicer as a test. | We've seen this sort of thing happen when you have incompatible dll's installed. E.g. so programs will install a vtkCommon.dll into your window system folder and windows tries to use it instead of the one that comes with windows. You could try doing a search for vtk*.dll in your system and remove or rename any that are not in slicer as a test. | ||
| + | |||
| + | = User FAQ : registration = | ||
| + | |||
| + | == How do I fix a wrong image orientation? / My image appears upside down / facing the wrong way / I have incorrect/missing axis orientation == | ||
| + | |||
| + | == What do the coordinate labels R,A,S and (negative numbers) mean? == | ||
| + | |||
| + | == How do I fix incorrect voxel size / aspect ratio of a loaded image volume? == | ||
| + | |||
| + | == The images are very far apart / do not overlap == | ||
| + | |||
| + | == How do I register a DWI image dataset to a structural reference scan? (Cookbook) == | ||
| + | |||
| + | == Can I manually adjust or correct a registration? == | ||
| + | |||
| + | == What's the difference between the various registration methods listed in Slicer? == | ||
| + | |||
| + | == What's the purpose of masking / VOI in registration? == | ||
| + | |||
| + | == Registration failed with an error. What should I try next? == | ||
| + | |||
| + | == Registration result is wrong or worse than before? == | ||
| + | |||
| + | == How many sample points should I choose for my registration? == | ||
| + | |||
| + | == I want to register two images with different intensity/contrast. == | ||
| + | |||
| + | == How important is bias field correction / intensity inhomogeneity correction? == | ||
| + | |||
| + | == Have the Slicer registration methods been validated? == | ||
| + | |||
| + | == I want to register many image pairs of the same type. Can I use Slicer registration in batch mode? == | ||
| + | |||
| + | == How can I save the parameter settings I have selected for later use or sharing? == | ||
| + | |||
| + | == Registration is too slow. How can I speed up my registration? == | ||
| + | |||
| + | == Registration results are inconsistent and don't work on some image pairs. Are there ways to make registration more robust? == | ||
| + | |||
| + | == One of my images has a clipped field of view. Can I still use automated registration? == | ||
| + | |||
| + | == I ran a registration but cannot see the result. How do I visualize the result transform? == | ||
| + | |||
| + | == What's the difference between Rigid and Affine registration? == | ||
| + | |||
| + | == What's the difference between Affine and BSpline registration? == | ||
| + | |||
| + | == The nonrigid (BSpline) registration transform does not seem to be nonrigid or does not show up correctly. == | ||
| + | |||
| + | == Can I combine multiple registrations? == | ||
| + | |||
| + | == Can I combine image and surface registration? == | ||
| + | |||
| + | == What's the difference between BRAINSfit and BRAINSDemonWarp? == | ||
| + | |||
| + | == Is the BRAINSfit registration for brain images only? == | ||
| + | |||
| + | == What's the difference between Fast Rigid and Linear Registration? == | ||
| + | |||
| + | == Which registration methods offer non-rigid transforms? == | ||
| + | |||
| + | == Which registration methods offer masking? == | ||
| + | |||
| + | |||
| + | |||
| + | = User FAQ : segmentation = | ||
= Developer FAQ = | = Developer FAQ = | ||
Revision as of 16:45, 23 November 2010
Home < Slicer3:FAQContents
- 1 User FAQ : installation & general use
- 2 User FAQ : registration
- 2.1 How do I fix a wrong image orientation? / My image appears upside down / facing the wrong way / I have incorrect/missing axis orientation
- 2.2 What do the coordinate labels R,A,S and (negative numbers) mean?
- 2.3 How do I fix incorrect voxel size / aspect ratio of a loaded image volume?
- 2.4 The images are very far apart / do not overlap
- 2.5 How do I register a DWI image dataset to a structural reference scan? (Cookbook)
- 2.6 Can I manually adjust or correct a registration?
- 2.7 What's the difference between the various registration methods listed in Slicer?
- 2.8 What's the purpose of masking / VOI in registration?
- 2.9 Registration failed with an error. What should I try next?
- 2.10 Registration result is wrong or worse than before?
- 2.11 How many sample points should I choose for my registration?
- 2.12 I want to register two images with different intensity/contrast.
- 2.13 How important is bias field correction / intensity inhomogeneity correction?
- 2.14 Have the Slicer registration methods been validated?
- 2.15 I want to register many image pairs of the same type. Can I use Slicer registration in batch mode?
- 2.16 How can I save the parameter settings I have selected for later use or sharing?
- 2.17 Registration is too slow. How can I speed up my registration?
- 2.18 Registration results are inconsistent and don't work on some image pairs. Are there ways to make registration more robust?
- 2.19 One of my images has a clipped field of view. Can I still use automated registration?
- 2.20 I ran a registration but cannot see the result. How do I visualize the result transform?
- 2.21 What's the difference between Rigid and Affine registration?
- 2.22 What's the difference between Affine and BSpline registration?
- 2.23 The nonrigid (BSpline) registration transform does not seem to be nonrigid or does not show up correctly.
- 2.24 Can I combine multiple registrations?
- 2.25 Can I combine image and surface registration?
- 2.26 What's the difference between BRAINSfit and BRAINSDemonWarp?
- 2.27 Is the BRAINSfit registration for brain images only?
- 2.28 What's the difference between Fast Rigid and Linear Registration?
- 2.29 Which registration methods offer non-rigid transforms?
- 2.30 Which registration methods offer masking?
- 3 User FAQ : segmentation
- 4 Developer FAQ
User FAQ : installation & general use
Is slicer3 ready for end users yet?
Yes! See the home page.
DLL Problems on Windows
I just download the 3D Slicer binaries for Windows and unpacked it. When I doubleclicked the file "slice2-win32-x86.ext", it gave out the error message can't find package vtk while executing "package require vtk" invoked from within "set::SLICER(VTK_VERSION) [package require vtk]" (file "C:/slicer2/Base/tck/Go.tck" line 483).
We've seen this sort of thing happen when you have incompatible dll's installed. E.g. so programs will install a vtkCommon.dll into your window system folder and windows tries to use it instead of the one that comes with windows. You could try doing a search for vtk*.dll in your system and remove or rename any that are not in slicer as a test.
User FAQ : registration
How do I fix a wrong image orientation? / My image appears upside down / facing the wrong way / I have incorrect/missing axis orientation
What do the coordinate labels R,A,S and (negative numbers) mean?
How do I fix incorrect voxel size / aspect ratio of a loaded image volume?
The images are very far apart / do not overlap
How do I register a DWI image dataset to a structural reference scan? (Cookbook)
Can I manually adjust or correct a registration?
What's the difference between the various registration methods listed in Slicer?
What's the purpose of masking / VOI in registration?
Registration failed with an error. What should I try next?
Registration result is wrong or worse than before?
How many sample points should I choose for my registration?
I want to register two images with different intensity/contrast.
How important is bias field correction / intensity inhomogeneity correction?
Have the Slicer registration methods been validated?
I want to register many image pairs of the same type. Can I use Slicer registration in batch mode?
How can I save the parameter settings I have selected for later use or sharing?
Registration is too slow. How can I speed up my registration?
Registration results are inconsistent and don't work on some image pairs. Are there ways to make registration more robust?
One of my images has a clipped field of view. Can I still use automated registration?
I ran a registration but cannot see the result. How do I visualize the result transform?
What's the difference between Rigid and Affine registration?
What's the difference between Affine and BSpline registration?
The nonrigid (BSpline) registration transform does not seem to be nonrigid or does not show up correctly.
Can I combine multiple registrations?
Can I combine image and surface registration?
What's the difference between BRAINSfit and BRAINSDemonWarp?
Is the BRAINSfit registration for brain images only?
What's the difference between Fast Rigid and Linear Registration?
Which registration methods offer non-rigid transforms?
Which registration methods offer masking?
User FAQ : segmentation
Developer FAQ
Where can I find out about writing code for slicer3?
The Developers page has lots of information.
