Dear List,
a basic question about greyordinate space. Am I right is saying that
these are technically not whole brain when looking at subcortical
structures?
We have been looking at volumetric (subcortical) maps resulting from
computing-seed based connectivity starting from MIGP dense PCASeries
(wb_command -cifti-average-roi-correlation.), and have noticed that the
resulting correlation maps are not "fully" dense in the subcortical
regions (e.g. around the amygdala).
Thanks in advance!
Nicola
On 7/14/2016 3:25 PM, Stephen Smith wrote:
Hi [comment also for Jenn below]
Sorry, we didn't calculate z-stat versions of the volumetric
group-average maps. The volumetric maps are really just intended as a
useful visual reference - the CIFTI versions are the "real thing".
---------------------------------
BTW - I think that you are not asking about *subject-specific* RSN
maps - but for completeness: just the CIFTI z-stat versions of those
are available online at HCP website.
Jenn - I've just noticed that the descriptions of these 3 recent
packages are totally wrong - that's probably my fault sorry - please
could you change all of the following text from:
The following links contain volumetric NIFTI versions of the CIFTI
MSMall Group-ICA parcellations, with various ICA dimensionalities applied.
Volumetric Parcellations for 10-, 25-, 50-, 100-dimensionalities
(57GB)
<https://db.humanconnectome.org/app/action/ChooseDownloadResources?project=HCP_Resources&resource=GroupAvg&filePath=HCP_S900_PTNmaps_d15_25_50_100.zip>
Volumetric Parcellations for 200-dimensionality (55GB)
<https://db.humanconnectome.org/app/action/ChooseDownloadResources?project=HCP_Resources&resource=GroupAvg&filePath=HCP_S900_PTNmaps_d200.zip>
Volumetric Parcellations for 300-dimensionality (85GB)
<https://db.humanconnectome.org/app/action/ChooseDownloadResources?project=HCP_Resources&resource=GroupAvg&filePath=HCP_S900_PTNmaps_d300.zip>
*/to being:/*
The following links contain subject-specific CIFTI maps:
subject-specific versions of the group-ICA parcellations, with various
ICA dimensionalities applied. These are z-statistic maps generated
using dual-regression.
CIFTI subject-specific Parcellations for 10-, 25-, 50-,
100-dimensionalities (57GB)
<https://db.humanconnectome.org/app/action/ChooseDownloadResources?project=HCP_Resources&resource=GroupAvg&filePath=HCP_S900_PTNmaps_d15_25_50_100.zip>
CIFTI subject-specific Parcellations for 200-dimensionality (55GB)
<https://db.humanconnectome.org/app/action/ChooseDownloadResources?project=HCP_Resources&resource=GroupAvg&filePath=HCP_S900_PTNmaps_d200.zip>
CIFTI subject-specific Parcellations for 300-dimensionality (85GB)
<https://db.humanconnectome.org/app/action/ChooseDownloadResources?project=HCP_Resources&resource=GroupAvg&filePath=HCP_S900_PTNmaps_d300.zip>
Thanks!
On 14 Jul 2016, at 06:49, Nicola Toschi <tos...@med.uniroma2.it
<mailto:tos...@med.uniroma2.it>> wrote:
Dear Prof. Smith,
Dear List,
one more question: would the Z-maps related to the second-last step
step (dual regression to create volumetric representations if the IC)
be available (they are not in the public release)?
This would greatly aid in interpreting/threshold the volumetric betas.
Thanks a lot in advance,
Nicola
On 07/06/2016 10:09 AM, Stephen Smith wrote:
Hi
Group-ICA is carried out in grayordinate space. Then:
For each subject, subject-wise grayordinate AND volumetric maps
(versions of the group-ICA) are estimated using dual-regression,
with node-timeseries normalisation, and outputs in units of GLM
betas (parameter estimates) not Z.
These volumetric maps are then averaged across subjects to generate
the group-average volumetric maps distributed from HCP.
So how you threshold these is up to you and depends what the
intended usage for that is.......
Cheers.
On 6 Jul 2016, at 07:26, Nicola Toschi <tos...@med.uniroma2.it> wrote:
Hi,
The volumetric version!
Thanks in advance,
Nicola
-------- Original message --------
From: Stephen Smith <st...@fmrib.ox.ac.uk
<mailto:st...@fmrib.ox.ac.uk>>
Date: 04/07/2016 12:37 PM (GMT+01:00)
To: Nicola Toschi <tos...@med.uniroma2.it
<mailto:tos...@med.uniroma2.it>>
Cc: hcp-users <hcp-users@humanconnectome.org
<mailto:hcp-users@humanconnectome.org>>
Subject: Re: [HCP-Users] Exact Meaning of ICA maps in 800 subjects
release
HI - do you mean the grayordinate or volumetric versions?
Cheers
On 4 Jul 2016, at 11:16, Nicola Toschi <tos...@med.uniroma2.it
<mailto:tos...@med.uniroma2.it>> wrote:
Hi list,
This may be more of a MELODIC question, but I would be grateful
for any input:
In the ICA release on 800+ subjects, what is the exact
mathematical meaning / definition of the (non-binary) intensities
of the different component volumes?
Are they easily relatable to a statistical map (I am looking to
threshold them to study main clusters and possibly correct for
multiple comparisons)?
Thanks in advance,
Nicola
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+44 (0) 1865 222726 (fax 222717)
st...@fmrib.ox.ac.uk <mailto:st...@fmrib.ox.ac.uk>
http://www.fmrib.ox.ac.uk/~steve
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Stop the cultural destruction of Tibet <http://smithinks.net/>
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Stephen M. Smith, Professor of Biomedical Engineering
Head of Analysis, Oxford University FMRIB Centre
FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
st...@fmrib.ox.ac.uk <mailto:st...@fmrib.ox.ac.uk>
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