open-discussion
open-discussion > RE: DWIConvert
Jan 31, 2018 05:01 PM | Martin Styner
RE: DWIConvert
I think we need to first make sure that the conversions are all
good.
After you divided the float nifti data by 10 and converted it to short (if you used my suggested command line then fslmaths did that conversion to short for you before using DWIConvert), did you load the converted/changed DWI back into fslview and checked it's appearance for some of the DWI volumes (for all b=0 and shells)?
If you then convert with DWIconvert to nrrd and back to nifti, is fslinfo producing the same results for both before and after the DWIconvert conversion? (there should be no difference now, as you did the short conversion with fslmaths)
If you visualize the DWI volumes converted back from nrrd with fslview, are the volume appearance appropriate/same as before conversion with DWIConvert?
Are the bval and bvec files before and after conversion consistent?
Then, one last thing, what is the range of values for the restricted_movement_rms output that you are looking for (i.e. what are those 2 values, since I usually use the eddy current correction in DTIPrep, I am unfamiliar with this output)?
Best regards
Martin
After you divided the float nifti data by 10 and converted it to short (if you used my suggested command line then fslmaths did that conversion to short for you before using DWIConvert), did you load the converted/changed DWI back into fslview and checked it's appearance for some of the DWI volumes (for all b=0 and shells)?
If you then convert with DWIconvert to nrrd and back to nifti, is fslinfo producing the same results for both before and after the DWIconvert conversion? (there should be no difference now, as you did the short conversion with fslmaths)
If you visualize the DWI volumes converted back from nrrd with fslview, are the volume appearance appropriate/same as before conversion with DWIConvert?
Are the bval and bvec files before and after conversion consistent?
Then, one last thing, what is the range of values for the restricted_movement_rms output that you are looking for (i.e. what are those 2 values, since I usually use the eddy current correction in DTIPrep, I am unfamiliar with this output)?
Best regards
Martin
Threaded View
Title | Author | Date |
---|---|---|
Jacek M | Apr 8, 2016 | |
Micah Johnson | Mar 22, 2018 | |
Daniel Berge | Mar 22, 2018 | |
Micah Johnson | Mar 22, 2018 | |
Daniel Berge | Mar 22, 2018 | |
Martin Styner | Mar 22, 2018 | |
Micah Johnson | Mar 22, 2018 | |
Micah Johnson | Mar 22, 2018 | |
Daniel Berge | Mar 22, 2018 | |
Micah Johnson | Mar 22, 2018 | |
Daniel Berge | Mar 22, 2018 | |
Micah Johnson | Mar 22, 2018 | |
Micah Johnson | Mar 22, 2018 | |
Ryan H | Jan 23, 2018 | |
Martin Styner | Jan 26, 2018 | |
Ryan H | Jan 26, 2018 | |
Martin Styner | Jan 26, 2018 | |
Ryan H | Jan 26, 2018 | |
Martin Styner | Jan 26, 2018 | |
Ryan H | Jan 26, 2018 | |
Martin Styner | Jan 29, 2018 | |
Ryan H | Jan 29, 2018 | |
Martin Styner | Jan 30, 2018 | |
Ryan H | Jan 30, 2018 | |
Martin Styner | Jan 31, 2018 | |
Ryan H | Feb 2, 2018 | |
Martin Styner | Feb 19, 2018 | |
Ryan H | Feb 19, 2018 | |
Martin Styner | Feb 21, 2018 | |
Ryan H | Jan 31, 2018 | |
Maike Kleemeyer | Jan 10, 2018 | |
Martin Styner | Jan 10, 2018 | |
Maike Kleemeyer | Jan 11, 2018 | |
Martin Styner | Jan 11, 2018 | |
Maike Kleemeyer | Jan 15, 2018 | |
Martin Styner | Jan 17, 2018 | |
Maike Kleemeyer | Jan 18, 2018 | |
Martin Styner | Jan 18, 2018 | |
Marie Drottar | Jun 7, 2016 | |
Jacek M | Apr 27, 2016 | |
Martin Styner | Apr 27, 2016 | |
Jacek M | Apr 15, 2016 | |
Martin Styner | Apr 15, 2016 | |
Micah Johnson | Mar 27, 2018 | |
Daniel Berge | Apr 2, 2018 | |
Micah Johnson | Apr 2, 2018 | |
Juan Prieto | Apr 8, 2016 | |
Jacek M | Apr 13, 2016 | |
Martin Styner | Apr 13, 2016 | |
Jacek M | Apr 13, 2016 | |
Martin Styner | Apr 8, 2016 | |