Hi, Thank you so much for assistant me in the process. I could do that. It worked. Thanks
Faezeh Vedaei On Wed, Mar 2, 2016 at 6:15 PM, Faeze Vedaei <faezeved...@gmail.com> wrote: > Hi > > Thank you so much for your help. I just got your meaning. I created new > LUT file by just changing randomly the RBG values for each 13 specific > regions and opened the annot file in tksurfer. And the strange issue is > that just for paracentral I used your values I had paracentral in tksurfer > GUI name, but for the rest of the regions I saw that problem I had before! > (the region's names were not the names in .ctab file). So, what do you > think about? > > Regards, > Faeze > > On Wed, Mar 2, 2016 at 2:59 PM, Faeze Vedaei <faezeved...@gmail.com> > wrote: > >> Hi, >> >> Thank you for your response. sorry, I could not understand what you mean. >> How you found 23 230 60 values for paracentral region? I mean. Are these >> from Freesurfer LUT? >> >> Regards, >> Faezeh Vedaei >> >> On Tue, Mar 1, 2016 at 9:33 PM, Faeze Vedaei <faezeved...@gmail.com> >> wrote: >> >>> Thank you for your response. It is better to explain my question that >>> the coordinates for paracentral in .ctab file is '63 100 60', that you >>> changed these to '23 230 60' in your new version. My question is that how >>> you applied such this change on the RBG values for this region? >>> >>> Regards, >>> Faezeh >>> >>> On Tue, Mar 1, 2016 at 5:55 PM, Faeze Vedaei <faezeved...@gmail.com> >>> wrote: >>> >>>> Thank you so much for you response. I should say that I know about what >>>> you are saying. My issue is that I have these 4 columns in my LUT file. Why >>>> and how can I change the numbers (RGB values) to create new LUT? >>>> >>>> Bests, >>>> Faezeh >>>> >>>> On Tue, Mar 1, 2016 at 5:37 PM, Faeze Vedaei <faezeved...@gmail.com> >>>> wrote: >>>> >>>>> Hi, >>>>> >>>>> Thank you so much for you descriptions. I checked out the link you >>>>> just sent me. Because I do not have many experiences working with >>>>> Freesurfer, I really could not understand about how I can do such this >>>>> revising in LUT file. Can you explain more about this? I truly appreciate >>>>> your time and help. >>>>> >>>>> Regards, >>>>> Faezeh Vedaei >>>>> >>>>> On Tue, Mar 1, 2016 at 3:49 PM, Faeze Vedaei <faezeved...@gmail.com> >>>>> wrote: >>>>> >>>>>> Hi, >>>>>> >>>>>> I really appreciate you for help me in this process. May you clarify >>>>>> me from which pattern you changed the RGB values for that region? How I >>>>>> can >>>>>> change the coordinates for the others? >>>>>> >>>>>> Regards, >>>>>> Faezeh Vedaei >>>>>> >>>>>> >>>>>> On Tue, Mar 1, 2016 at 2:51 PM, Faeze Vedaei <faezeved...@gmail.com> >>>>>> wrote: >>>>>> >>>>>>> Hi, >>>>>>> >>>>>>> I should let you know that, it works! It shows paracentral name in >>>>>>> tksurfer. So, how I have to revise my .ctab file to get the right >>>>>>> result? >>>>>>> >>>>>>> Regards, >>>>>>> Faezeh Vedaei >>>>>>> >>>>>>> On Tue, Mar 1, 2016 at 1:10 PM, Faeze Vedaei <faezeved...@gmail.com> >>>>>>> wrote: >>>>>>> >>>>>>>> Hi, >>>>>>>> >>>>>>>> Thank you for your response. I just used the command you suggested >>>>>>>> to use by just a change in calling .ctab LUT file. I used the path: >>>>>>>> 002_S_0413/labels/aparc.annot.a2009s.ctab because I could not work by >>>>>>>> just >>>>>>>> calling aparc.annot.a2009s.ctab. It is strange that I created annot >>>>>>>> file >>>>>>>> for lh.G_and_S_paracentral.label, but it shows its name in tksurfer: >>>>>>>> G_and_S_frontomarg! I excluded the part --nhits too. So, what is your >>>>>>>> opinion? >>>>>>>> >>>>>>>> Regards, >>>>>>>> Faezeh Vedaei >>>>>>>> >>>>>>>> On Tue, Mar 1, 2016 at 10:57 AM, Faeze Vedaei < >>>>>>>> faezeved...@gmail.com> wrote: >>>>>>>> >>>>>>>>> Hi, >>>>>>>>> >>>>>>>>> >>>>>>>>> Here is the text format of those files. >>>>>>>>> >>>>>>>>> Regards, >>>>>>>>> Faezeh Vedaei >>>>>>>>> >>>>>>>>> On Mon, Feb 29, 2016 at 5:30 PM, Faeze Vedaei < >>>>>>>>> faezeved...@gmail.com> wrote: >>>>>>>>> >>>>>>>>>> Hi >>>>>>>>>> >>>>>>>>>> Thank you so much for your response. I attached here three files >>>>>>>>>> including the command lines, LUT file , and the list of names I want >>>>>>>>>> to get >>>>>>>>>> and what the result is actually. I'd appreciate if you look at them >>>>>>>>>> and let >>>>>>>>>> me know what is wrong with that. >>>>>>>>>> >>>>>>>>>> Regards, >>>>>>>>>> Faezeh Vedaei >>>>>>>>>> >>>>>>>>>> On Mon, Feb 29, 2016 at 4:45 PM, Faeze Vedaei < >>>>>>>>>> faezeved...@gmail.com> wrote: >>>>>>>>>> >>>>>>>>>>> Hi, >>>>>>>>>>> >>>>>>>>>>> I checked again to arrange the labels in the order of LUT file, >>>>>>>>>>> but the result has not changed. Can you help me more how I can fix >>>>>>>>>>> this >>>>>>>>>>> problem? Thank you so much for your time and help. >>>>>>>>>>> >>>>>>>>>>> Regards, >>>>>>>>>>> Faezeh Vedaei >>>>>>>>>>> >>>>>>>>>>> On Mon, Feb 29, 2016 at 3:01 PM, Faeze Vedaei < >>>>>>>>>>> faezeved...@gmail.com> wrote: >>>>>>>>>>> >>>>>>>>>>>> Hi, >>>>>>>>>>>> >>>>>>>>>>>> Thank you for your response. Yes, you are right. The names come >>>>>>>>>>>> from the color LUT file. But, the issue is that I chose the label >>>>>>>>>>>> files >>>>>>>>>>>> from that LUT file too. It meas the source that I chose the label >>>>>>>>>>>> files >>>>>>>>>>>> from and the source of the region's names in tksurfer are the >>>>>>>>>>>> same. The >>>>>>>>>>>> problem is just I do not have the label's names I merged to create >>>>>>>>>>>> annot >>>>>>>>>>>> file, in the tksurfer GUI. It shows another names of that list! >>>>>>>>>>>> So, what do >>>>>>>>>>>> you think about? What is the problem? >>>>>>>>>>>> >>>>>>>>>>>> Regards, >>>>>>>>>>>> Faezeh Vedaei >>>>>>>>>>>> >>>>>>>>>>>> On Mon, Feb 29, 2016 at 12:42 PM, Faeze Vedaei < >>>>>>>>>>>> faezeved...@gmail.com> wrote: >>>>>>>>>>>> >>>>>>>>>>>>> Hi Freesurfer experts, >>>>>>>>>>>>> >>>>>>>>>>>>> I have created an annotation file by several label files using >>>>>>>>>>>>> mris_label2annot command in Freesurfer. The problem is that when >>>>>>>>>>>>> I open >>>>>>>>>>>>> this annot file in tksurfer and click on colored regions which >>>>>>>>>>>>> corresponded >>>>>>>>>>>>> to specific labels I had chosen them, I do not have their name on >>>>>>>>>>>>> the >>>>>>>>>>>>> vertex information part at the bottom of tksurfer GUI. It shows >>>>>>>>>>>>> very >>>>>>>>>>>>> different names for these regions. May you explains me what is >>>>>>>>>>>>> the problem >>>>>>>>>>>>> I could not see the exact region's name as I have them for label >>>>>>>>>>>>> files? >>>>>>>>>>>>> >>>>>>>>>>>>> Thanks, >>>>>>>>>>>>> Faezeh Vedaei >>>>>>>>>>>>> >>>>>>>>>>>> >>>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>> >>>>>>>>> >>>>>>>> >>>>>>> >>>>>> >>>>> >>>> >>> >> >
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