Dear Sir, Each label consists of several hippocampus subfield already marked with different integers as stated here https://github.com/CobraLab/atlases/tree/master/hippocampus-subfields.
I am interested in visualizing each of the sub field in the label with marked integers values. Thanks Vasudev On 31 March 2017 at 00:31, Timothy Coalson <[email protected]> wrote: > It looks like that method outputs each label as a separate file, which is > important information for understanding what your question is. I suggest > combining them into one file with different integers for each label. > > One way to do this is to use -volume-merge to turn the labels into a > multi-frame volume file, then use -volume-reduce INDEXMAX and MAX to > generate the file of integers, and a file you can mask out unlabeled areas > with (using -volume-math). Then use -volume-label-import to give them > names and colors. > > Tim > > > On Thu, Mar 30, 2017 at 5:03 PM, Dev vasu <vasudevamurthy.devulapally@ > gmail.com> wrote: > >> Dear Sir, >> >> >> I am not experiencing any problem but i am unable to see different colour >> maps in label files ( in .nii format ) , The labels are Hippocampus >> subfields which i have segmented using https://github.com/CobraLab/an >> tsRegistration-MAGeT . >> >> >> Thanks >> Vasudev >> >> On 30 March 2017 at 22:46, Timothy Coalson <[email protected]> wrote: >> >>> That isn't what -label-to-volume-mapping does, it requires a *surface* >>> label file (gifti) as input. >>> >>> wb_view should be able to load most nifti volume files, and it isn't >>> clear what kind of problem you are having (is there an error message? does >>> it show up in the save/manage files dialog?). What created the file? >>> >>> If you just have a volume file with integers in it, you can load it >>> as-is, but similar integers will get similar colors, which may not be >>> desired. You can use -volume-label-import on such a volume file to create >>> a workbench-format nifti label volume that allows you to set each label's >>> color and name independently. >>> >>> Tim >>> >>> >>> On Thu, Mar 30, 2017 at 1:53 PM, Dev vasu <vasudevamurthy.devulapally@gm >>> ail.com> wrote: >>> >>>> Dear all, >>>> >>>> I have label files in nifti format and i am unable to visualize color >>>> bars and associated labels , should i refine the labels using >>>> *-label-to-volume-mapping >>>> *and is there any mandatory naming convention and format ( NIFITI or >>>> GIFTI ) for Connectome workbench to recognize the labels ?. >>>> >>>> >>>> >>>> Thanks >>>> Vasudev >>>> >>>> >>>> _______________________________________________ >>>> HCP-Users mailing list >>>> [email protected] >>>> http://lists.humanconnectome.org/mailman/listinfo/hcp-users >>>> >>> >>> >> > _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
