[Freesurfer] PSIR to refine pial surface?

[Vriend, Chris]

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Dear Freesurfers,


In our centre we acquire T1 MPRAGE scans and phase-sensitive inversion recovery 
(PSIR) scans. Because of its better contrast between brain and non-brain I 
thought that we could use this scan in the freesurfer pipeline (v6.0)  to 
refine the pial surface. I've already tried to use the -FLAIRpial flag (even 
though it's obviously not a FLAIR) but that actually makes it worse. Does 
anyone know if it is at all possible or have any experience with using PSIR 
scans in freesurfer and can point me in the right direction?

Thanks,

Best wishes

Chris



[cid:image001.png@01D40E30.9B2FFEE0]

Dr. C. Vriend  | Assistant Professor
Anatomy & Neurosciences - section Neuropsychiatry | Psychiatry
Location VUmc | O|2 13W09 | De Boelelaan 1118, 1081 HZ Amsterdam
T: + 31 (0) 6 25 69 49 12  |  E: c.vri...@vumc.nl
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www.amsterdamumc.nl  |  
www.vumc.nl | 
http://www.neuroscience-amsterdam.nl/?page_id=189
_
VUmc disclaimer: www.vumc.nl/disclaimer

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[Freesurfer] Wash U Radiology Department Research Faculty Positions Available

[Moreau, Allison]

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FYI


Begin forwarded message:

From: WUNIC Email List Admin mailto:wu...@nrg.wustl.edu>>
Date: August 14, 2018 at 9:26:48 AM CDT
To: mailto:amor...@wustl.edu>>
Subject: Radiology Department_Research Faculty Positions Available
Reply-To: WUNIC Email List Admin 
mailto:wu...@nrg.wustl.edu>>

View this email in your 
browser


[https://gallery.mailchimp.com/28232c5fb4d47392812342a76/images/1303a9cd-2ee8-482c-8997-2bde70f231c0.jpg]


Dear all:
A new job ad for Radiology research faculty is now out. Neuroimaging is part of 
this search.
https://facultyopportunities.wustl.edu/Posting/Detail/1010318
Please forward liberally and encourage people to apply. Any questions can be 
directed to me (ta...@wustl.edu), Joe Culver 
(culv...@wustl.edu) or Rob Gropler 
(rgrop...@wustl.edu).

Best
Tammy
Tamara Hershey, PhD
Professor, Psychiatry & Radiology Departments
Lab Chief, Neuroimaging Labs (NIL) @ MIR
Director, McDonnell Center for Systems Neuroscience
Co-Director, Neuroscience PhD Program, DBBS
Washington University School of Medicine
Campus Box 8225, Room 2204, East Blg
4525 Scott Avenue
St. Louis, MO 63110
Phone: 314-362-5593
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[Freesurfer] Lesion segmentation

[Mo Izady]

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Hi FreeSurfer experts,

I have two questions; any hints are greatly appreciated:

1) What is considered lesion in subcortical segmentation? (tumor, MS,
stroke, etc)

2) Would you pls share the reference to the algorithm that FreeSurfer uses
for segmenting lesions?

Thanks in advance!

Mo Izady

PhD Candidate in Neuroscience
Arizona State University
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Re: [Freesurfer] Extracting number of vertices in Yeo's 7Networks from significant clusters

[Douglas N. Greve]

Use the --mask option to mri_segstats and pass it a surface overlay with 
just the cluster of interest in it. You can use --maskthresh and 
--masksign to fine-tune the masking process.

On 08/15/2018 02:17 PM, Shatil, Anwar Shahadat wrote:
>
> External Email - Use Caution
>
> Hi Doug:
>
>
> Thanks for your reply. I think you are correct.
>
>
> Is there any way to extract the number of vertices from the cluster 
> spanning each of Yeo's 7 networks? I tried to overlay 
> Yeo2011_7Networks_N1000.annot on the .mgh file and use my cursor to 
> get information, but that does not give me the number of vertices.
>
>
> Thanks,
>
> Anwar
>
>
>
> 
>
> Date: Wed, 15 Aug 2018 11:18:50 -0400
> From: "Douglas N. Greve" 
> Subject: Re: [Freesurfer] Extracting number of vertices in Yeo's
> 7Networks from significant clusters
> To: 
> Message-ID: <0870c8a6-0a29-b748-500a-3cbfbc39b...@mgh.harvard.edu>
> Content-Type: text/plain; charset="windows-1252"; format=flowed
>
> The input (--i) only supplies information for use in computing the Mean,
> StdDev, etc. The number of vertices willcome from the annot. Or am I
> misunderstanding something?
> 
> *From:* Shatil, Anwar Shahadat
> *Sent:* August 15, 2018 10:44 AM
> *To:* freesurfer@nmr.mgh.harvard.edu
> *Subject:* Extracting number of vertices in Yeo's 7Networks from 
> significant clusters
>
> Hello Doug and other experts:
>
>
> I have done QDEC analysis between two groups (healthy controls vs 
> disease) and obtained different .mgh and .annot files. I got one big 
> cluster covering most part of the brain. I wanted to extract the 
> number of vertices for Yeo's 7 Networks in that big cluster and 
> therefore I ran this:
>
>
> mri_segstats --i cache.th30.pos.sig.masked.mgh --annot fsaverage rh 
> Yeo2011_7Networks_N1000 --excludeid 0 --sum network_param.dat
>
> The result was:
>
> Col Headers  Index SegId NVertices Area_mm2 StructName Mean StdDev Min 
> Max Range
>   1   1     22519    14950.0  7Networks_1           1.4816     1.8126  
>    0.     3.6990  3.6990
>   2   2     30207    12514.7  7Networks_2           2.6658     1.6596  
>    0.     3.6990  3.6990
>   3   3     17604     8224.3  7Networks_3           2.6278     1.6778  
>    0.     3.6990  3.6990
>   4   4     19402     8357.2  7Networks_4           3.3453     1.0877  
>    0.     3.6990  3.6990
>   5   5     11614     6205.0  7Networks_5           2.1434     1.7750  
>    0.     3.6990  3.6990
>   6   6     22330    12170.7  7Networks_6           2.6315     1.6761  
>    0.     3.6990  3.6990
>   7   7     26056    13826.2  7Networks_7           3.0249     1.4229  
>    0.     3.6990  3.6990
>
> I ran the same code for different --i (input) .mgh files and everytime 
> the NVertices were the same, which means this is not the one I am 
> looking for.
>
> Can you please help me in getting the number of vertices of Yeo's each 
> network that fall in that big cluster?
>
> Thanks.
>
> Anwar
>
>
> -- 
>
> *Anwar S. Shatil*
>
> Research Assistant
> Department of Medical Imaging
> Sunnybrook Health Sciences Centre
> Room AB204, 2075 Bayview Avenue
> Toronto, ON M4N 3M5
> Tel: 416.480.6100 ext. 89617
> Email: anwar.sha...@sunnybrook.ca
>
> */This e-mail is intended only for the named recipient(s) and may 
> contain confidential, personal and/or health information (information 
> which may be subject to legal restrictions on use, retention and/or 
> disclosure).  No waiver of confidence is intended by virtue of 
> communication via the internet.  Any review or distribution by anyone 
> other than the person(s) for whom it was originally intended is 
> strictly prohibited.  If you have received this e-mail in error, 
> please contact the sender and destroy all copies./*
>
>
>
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Re: [Freesurfer] Using a cluster as an ROI for further analysis

[Ting Li]

External Email - Use Caution

Hi Douglas,

You instruction works perfect. Thanks a lot.

Regards,
Ting
> On Aug 14, 2018, at 11:01 AM, Ting Li  wrote:
> 
> Hi experts,
> 
> I have a significant cortical thickness cluster and want the cluster 
> thickness information in every subjects. How should I do it? Thanks. 
> 
> Ting 
>> On Aug 14, 2018, at 10:51 AM, Douglas Greve > > wrote:
>> 
>> First, run mris_preproc and mri_surf2surf commands as before to create a 
>> stack of P2 and P3. If you ran mri_glmfit-sim on P1,  then you will have an 
>> "ocn" output file. You can run
>> mri_segstats --i P2P3.stack.mgh --seg ocn.mgh --id N --avgwf 
>> P2P3.means-in-clusterN.dat
>> where N is the number of your cluster
>> P2P3.means-in-clusterN.dat will have a row for each subject in the stack, 
>> the value will be the mean in cluster N
>> 
>> 
>> On 8/13/18 11:48 PM, Martin Juneja wrote:
>>> External Email - Use Caution
>>> 
>>> For instance, if there is any way to extract spatial location of cluster X1 
>>> and use this location to extract thickness values of all the subjects from 
>>> P2 and P3, that way I can perform two-sample t-test. I am not sure if 
>>> that's feasible and if so, then how can we do that?
>>> 
>>> On Mon, Aug 13, 2018 at 7:04 PM, Martin Juneja >> > wrote:
>>> Hi experts,
>>> 
>>> I found a cluster X1, which showed significant difference in cortical 
>>> thickness between two groups C1 and P1, determined using mris_preproc, 
>>> mri_surf2surf and mri_glmfit commands.
>>> 
>>> I am interested in determining if the same cluster X1 has significantly 
>>> different cortical thickness group between two other groups P2 and P3.
>>> 
>>> I would really appreciate if you could please give me the step-by-step 
>>> guidance how this can be done.
>>> 
>>> Thanks.
>>> 
>>> 
>>> 
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> 

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Re: [Freesurfer] Extracting number of vertices in Yeo's 7Networks from significant clusters

[Shatil, Anwar Shahadat]

External Email - Use Caution

Hi Doug:


Thanks for your reply. I think you are correct.


Is there any way to extract the number of vertices from the cluster spanning 
each of Yeo's 7 networks? I tried to overlay Yeo2011_7Networks_N1000.annot on 
the .mgh file and use my cursor to get information, but that does not give me 
the number of vertices.


Thanks,

Anwar




Date: Wed, 15 Aug 2018 11:18:50 -0400
From: "Douglas N. Greve" 
Subject: Re: [Freesurfer] Extracting number of vertices in Yeo's
7Networks from significant clusters
To: 
Message-ID: <0870c8a6-0a29-b748-500a-3cbfbc39b...@mgh.harvard.edu>
Content-Type: text/plain; charset="windows-1252"; format=flowed

The input (--i) only supplies information for use in computing the Mean,
StdDev, etc. The number of vertices willcome from the annot. Or am I
misunderstanding something?

From: Shatil, Anwar Shahadat
Sent: August 15, 2018 10:44 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Extracting number of vertices in Yeo's 7Networks from significant 
clusters


Hello Doug and other experts:


I have done QDEC analysis between two groups (healthy controls vs disease) and 
obtained different .mgh and .annot files. I got one big cluster covering most 
part of the brain. I wanted to extract the number of vertices for Yeo's 7 
Networks in that big cluster and therefore I ran this:


mri_segstats --i cache.th30.pos.sig.masked.mgh --annot fsaverage rh 
Yeo2011_7Networks_N1000 --excludeid 0 --sum network_param.dat

The result was:

Col Headers  Index SegId NVertices Area_mm2 StructName Mean StdDev Min Max Range
  1   1 2251914950.0  7Networks_11.4816 
1.8126 0. 3.6990 3.6990
  2   2 3020712514.7  7Networks_22.6658 
1.6596 0. 3.6990 3.6990
  3   3 17604 8224.3  7Networks_32.6278 
1.6778 0. 3.6990 3.6990
  4   4 19402 8357.2  7Networks_43.3453 
1.0877 0. 3.6990 3.6990
  5   5 11614 6205.0  7Networks_52.1434 
1.7750 0. 3.6990 3.6990
  6   6 2233012170.7  7Networks_62.6315 
1.6761 0. 3.6990 3.6990
  7   7 2605613826.2  7Networks_73.0249 
1.4229 0. 3.6990 3.6990

I ran the same code for different --i (input) .mgh files and everytime the 
NVertices were the same, which means this is not the one I am looking for.

Can you please help me in getting the number of vertices of Yeo's each network 
that fall in that big cluster?

Thanks.

Anwar



--

Anwar S. Shatil

Research Assistant
Department of Medical Imaging
Sunnybrook Health Sciences Centre
Room AB204, 2075 Bayview Avenue
Toronto, ON M4N 3M5
Tel: 416.480.6100 ext. 89617
Email: anwar.sha...@sunnybrook.ca
This e-mail is intended only for the named recipient(s) and may contain 
confidential, personal and/or health information (information which may be 
subject to legal restrictions on use, retention and/or disclosure).  No waiver 
of confidence is intended by virtue of communication via the internet.  Any 
review or distribution by anyone other than the person(s) for whom it was 
originally intended is strictly prohibited.  If you have received this e-mail 
in error, please contact the sender and destroy all copies.

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Re: [Freesurfer] mri_label2label no registration difference

[Douglas N. Greve]

Can you send the command lines you used?

On 08/15/2018 05:54 AM, Yagmur Ozdemir 19 wrote:
>
> External Email - Use Caution
>
> Hello FreeSurfer experts,
>
> I want to compare the labels produced by two different registration 
> methods in mri_label2label; either using the sphere or TAL space as an 
> intermediate ( --regmethod). However I see that there is no difference 
> between the labels produced with these different registrations. Is 
> this normal or should I look for an error? I looked at the script to 
> match with my outputs and everything seems to have worked allright.
>
> Thank you
> Idil
>
>
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[Freesurfer] Fwd: Call for Nominations: OHBM Student and Postdoc Special Interest Group

[Douglas N. Greve]

FYI


 Forwarded Message 
Subject: 	[Freesurfer] Call for Nominations: OHBM Student and Postdoc 
Special Interest Group

Date:   Wed, 15 Aug 2018 11:30:57 +0200
From:   Chiara Caldinelli 
Reply-To:   Freesurfer support list 
To: freesurfer@nmr.mgh.harvard.edu



External Email - Use Caution

Dear All,

The *OHBM Student and Postdoc Special Interest Group* (SIG) is seeking
nominations for open seats on the 2018-2019 SIG Committee.

The SIG provides a community of shared interests for OHBM trainees.
The Committee aims to provide professional, personal and career 
development for OHBM trainees as well as social and mentoring 
opportunities at the Annual Meeting.


Committee members benefit from being an integral part of the SIG 
community, directing its activities, and working with the OHBM Executive 
Office and wider community.


We are committed to diversity and equality and are seeking 
representation from

trainees across the world.

Eligibility
*Nominees  must be  current  students  or  postdocs. *
Students  are defined  as those  working  full  time  towards  a
graduate  degree  -  M.A., M.S.,  Ph.D.  or  M.D.  degree.  Postdocs
are  individuals who  are  no  more  than  four  years  after  completing
such  a  degree at  the  time  of  next  Annual  Meeting.
Nominees  must  be members  of  OHBM  in  good  standing  at  the  time
of  the  next Annual  Meeting.
Nominees  must  be planning  to  attend  the  next  two  Annual  Meetings
in Rome  2019  and Montreal 2020 (and  likely  to  attend  the  meeting  
in 2021).

To nominate yourself for election to the SIG Committee please
complete this nomination form: XXX no later than August 31st, 2018.

Email ohbmtrain...@gmail.com  if you have 
any questions.


Nominations close on the 31st August 2018.



Kind Regards,

OHBM Student and Postdoc SIG
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Re: [Freesurfer] Extracting number of vertices in Yeo's 7Networks from significant clusters

[Douglas N. Greve]

The input (--i) only supplies information for use in computing the Mean, 
StdDev, etc. The number of vertices willcome from the annot. Or am I 
misunderstanding something?

On 08/15/2018 10:44 AM, Shatil, Anwar Shahadat wrote:
>
> External Email - Use Caution
>
> Hello Doug and other experts:
>
>
> I have done QDEC analysis between two groups (healthy controls vs 
> disease) and obtained different .mgh and .annot files. I got one big 
> cluster covering most part of the brain. I wanted to extract the 
> number of vertices for Yeo's 7 Networks in that big cluster and 
> therefore I ran this:
>
>
> mri_segstats --i cache.th30.pos.sig.masked.mgh --annot fsaverage rh 
> Yeo2011_7Networks_N1000 --excludeid 0 --sum network_param.dat
>
> The result was:
>
> Col Headers  Index SegId NVertices Area_mm2 StructName Mean StdDev Min 
> Max Range
>   1   1     22519    14950.0  7Networks_1       1.4816     1.8126    
>  0.     3.6990     3.6990
>   2   2     30207    12514.7  7Networks_2       2.6658     1.6596    
>  0.     3.6990     3.6990
>   3   3     17604     8224.3  7Networks_3       2.6278     1.6778    
>  0.     3.6990     3.6990
>   4   4     19402     8357.2  7Networks_4       3.3453     1.0877    
>  0.     3.6990     3.6990
>   5   5     11614     6205.0  7Networks_5       2.1434     1.7750    
>  0.     3.6990     3.6990
>   6   6     22330    12170.7  7Networks_6       2.6315     1.6761    
>  0.     3.6990     3.6990
>   7   7     26056    13826.2  7Networks_7       3.0249     1.4229    
>  0.     3.6990     3.6990
>
> I ran the same code for different --i (input) .mgh files and everytime 
> the NVertices were the same, which means this is not the one I am 
> looking for.
>
> Can you please help me in getting the number of vertices of Yeo's each 
> network that fall in that big cluster?
>
> Thanks.
>
> Anwar
>
>
> -- 
>
> *Anwar S. Shatil*
>
> Research Assistant
> Department of Medical Imaging
> Sunnybrook Health Sciences Centre
> Room AB204, 2075 Bayview Avenue
> Toronto, ON M4N 3M5
> Tel: 416.480.6100 ext. 89617
> Email: anwar.sha...@sunnybrook.ca
>
> */This e-mail is intended only for the named recipient(s) and may 
> contain confidential, personal and/or health information (information 
> which may be subject to legal restrictions on use, retention and/or 
> disclosure).  No waiver of confidence is intended by virtue of 
> communication via the internet.  Any review or distribution by anyone 
> other than the person(s) for whom it was originally intended is 
> strictly prohibited.  If you have received this e-mail in error, 
> please contact the sender and destroy all copies./*
>
>
>
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[Freesurfer] Extracting number of vertices in Yeo's 7Networks from significant clusters

[Shatil, Anwar Shahadat]

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Hello Doug and other experts:


I have done QDEC analysis between two groups (healthy controls vs disease) and 
obtained different .mgh and .annot files. I got one big cluster covering most 
part of the brain. I wanted to extract the number of vertices for Yeo's 7 
Networks in that big cluster and therefore I ran this:


mri_segstats --i cache.th30.pos.sig.masked.mgh --annot fsaverage rh 
Yeo2011_7Networks_N1000 --excludeid 0 --sum network_param.dat

The result was:

Col Headers  Index SegId NVertices Area_mm2 StructName Mean StdDev Min Max Range
  1   1 2251914950.0  7Networks_11.4816 
1.8126 0. 3.6990 3.6990
  2   2 3020712514.7  7Networks_22.6658 
1.6596 0. 3.6990 3.6990
  3   3 17604 8224.3  7Networks_32.6278 
1.6778 0. 3.6990 3.6990
  4   4 19402 8357.2  7Networks_43.3453 
1.0877 0. 3.6990 3.6990
  5   5 11614 6205.0  7Networks_52.1434 
1.7750 0. 3.6990 3.6990
  6   6 2233012170.7  7Networks_62.6315 
1.6761 0. 3.6990 3.6990
  7   7 2605613826.2  7Networks_73.0249 
1.4229 0. 3.6990 3.6990

I ran the same code for different --i (input) .mgh files and everytime the 
NVertices were the same, which means this is not the one I am looking for.

Can you please help me in getting the number of vertices of Yeo's each network 
that fall in that big cluster?

Thanks.

Anwar



--

Anwar S. Shatil

Research Assistant
Department of Medical Imaging
Sunnybrook Health Sciences Centre
Room AB204, 2075 Bayview Avenue
Toronto, ON M4N 3M5
Tel: 416.480.6100 ext. 89617
Email: anwar.sha...@sunnybrook.ca
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Re: [Freesurfer] ERROR: matrix is ill-conditioned or badly scaled, condno = 18696.1

[Nabin Koirala]

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Thanks a lot Doug. Normalizing the age worked out.

Regards,
Nabin

On Tue, Aug 14, 2018 at 5:29 PM Douglas Greve 
wrote:

> The main problem is the 4th group where you only have two subjects and
> they are almost exactly the same age. This makes it hard to estimate the
> age slope and is causing the ill-conditioned error. You can try normalizing
> the ages (ie subtract the mean and divide by the stddev), you can remove
> age as a covariate,  you can eliminate this group. Alternatively, you can
> elimate the age slope just for this group (this requires that you create
> your own design matrix).
>
> On 8/14/18 6:00 AM, Nabin Koirala wrote:
>
> External Email - Use Caution
> Hi freesurfer community,
>
> I am trying to do QDEC with a data for 2 groups but stuck in this error
> for many hours now. Tried and checked everything I could think of. Also
> went through the old threads and checked those recommneded but still could
> not solve it. Your hint will be very helpful.
>
> *ERROR: matrix is ill-conditioned or badly scaled, condno = 18696.1*
> **
> *Possible problem with experimental design:*
> *Check for duplicate entries and/or lack of range of*
> *continuous variables within a class.*
> *If you seek help with this problem, make sure to send:*
> *  1. Your command line:*
> *mri_glmfit --y
> /gpfs/fs1/home/mmuthura/freesurfer/subjects/qdec/Untitled/y.mgh --fsgd
> /gpfs/fs1/home/mmuthura/freesurfer/subjects/qdec/Untitled/qdec.fsgd dods
> --glmdir /gpfs/fs1/home/mmuthura/freesurfer/subjects/qdec/Untitled --surf
> fsaverage lh --label
> /gpfs/fs1/home/mmuthura/freesurfer/subjects/fsaverage/label/lh.aparc.label
> --C
> /gpfs/fs1/home/mmuthura/freesurfer/subjects/qdec/Untitled/contrasts/lh-Avg-Intercept-thickness.mat
> --C
> /gpfs/fs1/home/mmuthura/freesurfer/subjects/qdec/Untitled/contrasts/lh-Diff-f-m-Intercept-thickness.mat
> --C
> /gpfs/fs1/home/mmuthura/freesurfer/subjects/qdec/Untitled/contrasts/lh-Diff-Epi-Chr-Intercept-thickness.mat
> --C
> /gpfs/fs1/home/mmuthura/freesurfer/subjects/qdec/Untitled/contrasts/lh-X-gender-Group-Intercept-thickness.mat*
>
> *2. The FSGD file (attached)*
>
> *3. Design Matrix*
>
> Design matrix --
>  1.000   0.000   0.000   0.000   31.300   0.000   0.000   0.000;
>  1.000   0.000   0.000   0.000   22.760   0.000   0.000   0.000;
>  1.000   0.000   0.000   0.000   29.390   0.000   0.000   0.000;
>  1.000   0.000   0.000   0.000   49.160   0.000   0.000   0.000;
>  1.000   0.000   0.000   0.000   23.810   0.000   0.000   0.000;
>  1.000   0.000   0.000   0.000   45.000   0.000   0.000   0.000;
>  0.000   1.000   0.000   0.000   0.000   21.830   0.000   0.000;
>  1.000   0.000   0.000   0.000   49.540   0.000   0.000   0.000;
>  1.000   0.000   0.000   0.000   40.550   0.000   0.000   0.000;
>  0.000   1.000   0.000   0.000   0.000   22.660   0.000   0.000;
>  1.000   0.000   0.000   0.000   26.080   0.000   0.000   0.000;
>  0.000   1.000   0.000   0.000   0.000   32.570   0.000   0.000;
>  0.000   1.000   0.000   0.000   0.000   47.190   0.000   0.000;
>  1.000   0.000   0.000   0.000   27.710   0.000   0.000   0.000;
>  1.000   0.000   0.000   0.000   25.860   0.000   0.000   0.000;
>  1.000   0.000   0.000   0.000   25.180   0.000   0.000   0.000;
>  0.000   0.000   1.000   0.000   0.000   0.000   27.630   0.000;
>  0.000   0.000   1.000   0.000   0.000   0.000   51.930   0.000;
>  0.000   0.000   1.000   0.000   0.000   0.000   25.060   0.000;
>  0.000   0.000   0.000   1.000   0.000   0.000   0.000   60.650;
>  0.000   0.000   1.000   0.000   0.000   0.000   59.360   0.000;
>  0.000   0.000   0.000   1.000   0.000   0.000   0.000   62.450;
>  0.000   0.000   1.000   0.000   0.000   0.000   20.480   0.000;
>  0.000   0.000   1.000   0.000   0.000   0.000   36.550   0.000;
>  0.000   0.000   1.000   0.000   0.000   0.000   37.000   0.000;
>
>
>
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[Freesurfer] mri_label2label no registration difference

[Yagmur Ozdemir 19]

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Hello FreeSurfer experts,

I want to compare the labels produced by two different registration methods in 
mri_label2label; either using the sphere or TAL space as an intermediate ( 
--regmethod). However I see that there is no difference between the labels 
produced with these different registrations. Is this normal or should I look 
for an error? I looked at the script to match with my outputs and everything 
seems to have worked allright.

Thank you
Idil
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[Freesurfer] Call for Nominations: OHBM Student and Postdoc Special Interest Group

[Chiara Caldinelli]

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Dear All,

The *OHBM Student and Postdoc Special Interest Group* (SIG) is seeking
nominations for open seats on the 2018-2019 SIG Committee.

The SIG provides a community of shared interests for OHBM trainees.
The Committee aims to provide professional, personal and career development
for OHBM trainees as well as social and mentoring opportunities at the
Annual Meeting.

Committee members benefit from being an integral part of the SIG community,
directing its activities, and working with the OHBM Executive Office and
wider community.

We are committed to diversity and equality and are seeking representation
from
trainees across the world.

Eligibility
*Nominees  must  be  current  students  or  postdocs. *
Students  are  defined  as those  working  full  time  towards  a
graduate  degree   -  M.A., M.S.,  Ph.D.  or  M.D.  degree.  Postdocs
are  individuals  who  are  no  more  than  four  years  after  completing
such  a  degree  at  the  time  of  next  Annual  Meeting.
Nominees  must  be  members  of  OHBM  in  good  standing  at  the  time
of  the  next  Annual  Meeting.
Nominees  must  be  planning  to  attend  the  next  two  Annual  Meetings
in Rome  2019  and  Montreal 2020 (and  likely  to  attend  the  meeting
in  2021).
To nominate yourself for election to the SIG Committee please
complete this nomination form: https://goo.gl/forms/DeC5FoQx4nwbel1K3 no
later than August 31st, 2018.

Email ohbmtrain...@gmail.com if you have any questions.

Nominations close on the 31st August 2018.



Kind Regards,

OHBM Student and Postdoc SIG
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