Re: [Freesurfer] Proposed addition for Freesurfer - automated control points

2018-06-30 Thread Chris Adamson 
External Email - Use Caution

Hi Bruce,

I sent all the material to Leah. You are right about the normalization being a 
control point finding tool. But in the temporal cortex or inferior frontal 
where the WM is really thin or there is movement corruption this can cause the 
wm voxels to be too dark after normalization. The aseg tends to be correct 
however, so the control points basically go into locations where the aseg is WM 
but the surfaces segment as GM. I'll put the github location so anyone can 
evaluate it

https://github.com/DevelopmentalImagingMCRI/freesurfer_cp_tool
From: freesurfer-boun...@nmr.mgh.harvard.edu 
 On Behalf Of Bruce Fischl
Sent: Saturday, 30 June 2018 12:21 AM
To: Freesurfer support list 
Subject: Re: [Freesurfer] Proposed addition for Freesurfer - automated control 
points

Hi Chris

can you elaborate a bit? Our intensity normalization is almost entirely an
automated control point finding tool.

cheers
Bruce


On Fri, 29 Jun 2018, Chris Adamson
wrote:

>
> External Email - Use Caution
>
> Freesurfer devs,
>
>
>
> I presented an automated control point adding tool at HBM and a few 
> freesurfer lab people
> came over and had a look. I was wondering if someone would like to review it 
> for either
> inclusion or to perhaps reference from the wiki as a tool for people to use 
> if they choose?
>
>
>
> Thanks in advance,
>
>
>
> Chris.
>
>
>
> Dr Chris Adamson
>
> Senior Research Officer
>
> Developmental Imaging, Clinical Sciences
>
>
>
> Murdoch Childrens Research Institute
>
> The Royal Children's Hospital
>
> Flemington Road, Parkville, VIC 3052 Australia
>
> E chris.adam...@mcri.edu.au<mailto:chris.adam...@mcri.edu.au>
>
> www.mcri.edu.au<http://www.mcri.edu.au>
>
>
>
>
>
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Re: [Freesurfer] Proposed addition for Freesurfer - automated control points

2018-06-29 Thread Bruce Fischl 

Hi Chris

can you elaborate a bit? Our intensity normalization is almost entirely an 
automated control point finding tool.


cheers
Bruce


On Fri, 29 Jun 2018, Chris Adamson 
wrote:




External Email - Use Caution

Freesurfer devs,

 

I presented an automated control point adding tool at HBM and a few freesurfer 
lab people
came over and had a look. I was wondering if someone would like to review it 
for either
inclusion or to perhaps reference from the wiki as a tool for people to use if 
they choose?

 

Thanks in advance,

 

Chris.

 

Dr Chris Adamson

Senior Research Officer

Developmental Imaging, Clinical Sciences

 

Murdoch Childrens Research Institute

The Royal Children’s Hospital

Flemington Road, Parkville, VIC 3052 Australia

E chris.adam...@mcri.edu.au 

www.mcri.edu.au

 

 

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Childrens Research
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[Freesurfer] Proposed addition for Freesurfer - automated control points

2018-06-28 Thread Chris Adamson 
External Email - Use Caution

Freesurfer devs,

I presented an automated control point adding tool at HBM and a few freesurfer 
lab people came over and had a look. I was wondering if someone would like to 
review it for either inclusion or to perhaps reference from the wiki as a tool 
for people to use if they choose?

Thanks in advance,

Chris.

Dr Chris Adamson
Senior Research Officer
Developmental Imaging, Clinical Sciences

Murdoch Childrens Research Institute
The Royal Children's Hospital
Flemington Road, Parkville, VIC 3052 Australia
E chris.adam...@mcri.edu.au
www.mcri.edu.au


This e-mail and any attachments to it (the "Communication") are, unless 
otherwise stated, confidential, may contain copyright material and is for the 
use only of the intended recipient. If you receive the Communication in error, 
please notify the sender immediately by return e-mail, delete the Communication 
and the return e-mail, and do not read, copy, retransmit or otherwise deal with 
it. Any views expressed in the Communication are those of the individual sender 
only, unless expressly stated to be those of Murdoch Childrens Research 
Institute (MCRI) ABN 21 006 566 972 or any of its related entities. MCRI does 
not accept liability in connection with the integrity of or errors in the 
Communication, computer virus, data corruption, interference or delay arising 
from or in respect of the Communication.

P Please consider the environment before printing this email

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