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config annex.largefiles=nothing
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metadata/aggregate* annex.largefiles=nothing
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metadata/objects/** annex.largefiles=(anything)
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[datalad "dataset"]
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id = ba4dd9c9-f16d-4395-8dbe-bcdb105b38da
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* annex.backend=MD5E
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**/.git* annex.largefiles=nothing
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README.md annex.largefiles=nothing
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LICENSE annex.largefiles=nothing
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../.git/annex/objects/QP/Q7/MD5E-s511019148--bcb76449ffc503b4e9e3c7bc7de32717.mif/MD5E-s511019148--bcb76449ffc503b4e9e3c7bc7de32717.mif
|
||||
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|
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|
|||
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|
||||
|
|
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|
|||
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|
||||
|
|
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|
|||
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|
||||
|
|
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|
|||
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|
||||
|
|
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|
|||
../.git/annex/objects/xf/V2/MD5E-s511020824--83962a8321a952edeacf4cc1e39607bd.mif/MD5E-s511020824--83962a8321a952edeacf4cc1e39607bd.mif
|
||||
|
|
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|
|||
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|
||||
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|
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|
|||
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|
||||
|
|
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|
|||
../.git/annex/objects/1G/PW/MD5E-s447127324--83e66ef715f3f1820c9af5ec9030897a.mif/MD5E-s447127324--83e66ef715f3f1820c9af5ec9030897a.mif
|
||||
|
|
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|
|||
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|
||||
|
|
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|
|||
../.git/annex/objects/3w/Z1/MD5E-s447127324--72aeed6b25148381754d657e9bdb6a2c.mif/MD5E-s447127324--72aeed6b25148381754d657e9bdb6a2c.mif
|
||||
|
|
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|
|||
../.git/annex/objects/2v/PV/MD5E-s447127324--7b242cade5274fd99004d109ea4ab940.mif/MD5E-s447127324--7b242cade5274fd99004d109ea4ab940.mif
|
||||
|
|
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|
|||
../.git/annex/objects/5Z/F5/MD5E-s447127316--162cff0b44d053bc14de57477608f289.mif/MD5E-s447127316--162cff0b44d053bc14de57477608f289.mif
|
||||
403
LICENSE
403
LICENSE
|
|
@ -1,403 +0,0 @@
|
|||
Attribution-NonCommercial-NoDerivatives 4.0 International
|
||||
|
||||
=======================================================================
|
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|
||||
Creative Commons Corporation ("Creative Commons") is not a law firm and
|
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Using Creative Commons Public Licenses
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By exercising the Licensed Rights (defined below), You accept and agree
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d. Exceptions and Limitations means fair use, fair dealing, and/or
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i. Share means to provide material to the public by any means or
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j. Sui Generis Database Rights means rights other than copyright
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k. You means the individual or entity exercising the Licensed Rights
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under this Public License. Your has a corresponding meaning.
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Section 2 -- Scope.
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1. Subject to the terms and conditions of this Public License,
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the Licensor hereby grants You a worldwide, royalty-free,
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non-sublicensable, non-exclusive, irrevocable license to
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exercise the Licensed Rights in the Licensed Material to:
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||||
a. reproduce and Share the Licensed Material, in whole or
|
||||
in part, for NonCommercial purposes only; and
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b. produce and reproduce, but not Share, Adapted Material
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for NonCommercial purposes only.
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||||
2. Exceptions and Limitations. For the avoidance of doubt, where
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||||
Exceptions and Limitations apply to Your use, this Public
|
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License does not apply, and You do not need to comply with
|
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its terms and conditions.
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||||
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||||
3. Term. The term of this Public License is specified in Section
|
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6(a).
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||||
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||||
4. Media and formats; technical modifications allowed. The
|
||||
Licensor authorizes You to exercise the Licensed Rights in
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all media and formats whether now known or hereafter created,
|
||||
and to make technical modifications necessary to do so. The
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||||
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||||
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|
||||
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|
||||
technical modifications necessary to circumvent Effective
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Technological Measures. For purposes of this Public License,
|
||||
simply making modifications authorized by this Section 2(a)
|
||||
(4) never produces Adapted Material.
|
||||
|
||||
5. Downstream recipients.
|
||||
|
||||
a. Offer from the Licensor -- Licensed Material. Every
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
|
||||
b. No downstream restrictions. You may not offer or impose
|
||||
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||||
apply any Effective Technological Measures to, the
|
||||
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|
||||
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|
||||
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|
||||
|
||||
6. No endorsement. Nothing in this Public License constitutes or
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
|
||||
b. Other rights.
|
||||
|
||||
1. Moral rights, such as the right of integrity, are not
|
||||
licensed under this Public License, nor are publicity,
|
||||
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|
||||
the extent possible, the Licensor waives and/or agrees not to
|
||||
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|
||||
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|
||||
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|
||||
|
||||
2. Patent and trademark rights are not licensed under this
|
||||
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|
||||
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||||
3. To the extent possible, the Licensor waives any right to
|
||||
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|
||||
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|
||||
under any voluntary or waivable statutory or compulsory
|
||||
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|
||||
reserves any right to collect such royalties, including when
|
||||
the Licensed Material is used other than for NonCommercial
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||||
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|
||||
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||||
|
||||
Section 3 -- License Conditions.
|
||||
|
||||
Your exercise of the Licensed Rights is expressly made subject to the
|
||||
following conditions.
|
||||
|
||||
a. Attribution.
|
||||
|
||||
1. If You Share the Licensed Material, You must:
|
||||
|
||||
a. retain the following if it is supplied by the Licensor
|
||||
with the Licensed Material:
|
||||
|
||||
i. identification of the creator(s) of the Licensed
|
||||
Material and any others designated to receive
|
||||
attribution, in any reasonable manner requested by
|
||||
the Licensor (including by pseudonym if
|
||||
designated);
|
||||
|
||||
ii. a copyright notice;
|
||||
|
||||
iii. a notice that refers to this Public License;
|
||||
|
||||
iv. a notice that refers to the disclaimer of
|
||||
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|
||||
|
||||
v. a URI or hyperlink to the Licensed Material to the
|
||||
extent reasonably practicable;
|
||||
|
||||
b. indicate if You modified the Licensed Material and
|
||||
retain an indication of any previous modifications; and
|
||||
|
||||
c. indicate the Licensed Material is licensed under this
|
||||
Public License, and include the text of, or the URI or
|
||||
hyperlink to, this Public License.
|
||||
|
||||
For the avoidance of doubt, You do not have permission under
|
||||
this Public License to Share Adapted Material.
|
||||
|
||||
2. You may satisfy the conditions in Section 3(a)(1) in any
|
||||
reasonable manner based on the medium, means, and context in
|
||||
which You Share the Licensed Material. For example, it may be
|
||||
reasonable to satisfy the conditions by providing a URI or
|
||||
hyperlink to a resource that includes the required
|
||||
information.
|
||||
|
||||
3. If requested by the Licensor, You must remove any of the
|
||||
information required by Section 3(a)(1)(A) to the extent
|
||||
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|
||||
|
||||
|
||||
Section 4 -- Sui Generis Database Rights.
|
||||
|
||||
Where the Licensed Rights include Sui Generis Database Rights that
|
||||
apply to Your use of the Licensed Material:
|
||||
|
||||
a. for the avoidance of doubt, Section 2(a)(1) grants You the right
|
||||
to extract, reuse, reproduce, and Share all or a substantial
|
||||
portion of the contents of the database for NonCommercial purposes
|
||||
only and provided You do not Share Adapted Material;
|
||||
|
||||
b. if You include all or a substantial portion of the database
|
||||
contents in a database in which You have Sui Generis Database
|
||||
Rights, then the database in which You have Sui Generis Database
|
||||
Rights (but not its individual contents) is Adapted Material; and
|
||||
|
||||
c. You must comply with the conditions in Section 3(a) if You Share
|
||||
all or a substantial portion of the contents of the database.
|
||||
|
||||
For the avoidance of doubt, this Section 4 supplements and does not
|
||||
replace Your obligations under this Public License where the Licensed
|
||||
Rights include other Copyright and Similar Rights.
|
||||
|
||||
|
||||
Section 5 -- Disclaimer of Warranties and Limitation of Liability.
|
||||
|
||||
a. UNLESS OTHERWISE SEPARATELY UNDERTAKEN BY THE LICENSOR, TO THE
|
||||
EXTENT POSSIBLE, THE LICENSOR OFFERS THE LICENSED MATERIAL AS-IS
|
||||
AND AS-AVAILABLE, AND MAKES NO REPRESENTATIONS OR WARRANTIES OF
|
||||
ANY KIND CONCERNING THE LICENSED MATERIAL, WHETHER EXPRESS,
|
||||
IMPLIED, STATUTORY, OR OTHER. THIS INCLUDES, WITHOUT LIMITATION,
|
||||
WARRANTIES OF TITLE, MERCHANTABILITY, FITNESS FOR A PARTICULAR
|
||||
PURPOSE, NON-INFRINGEMENT, ABSENCE OF LATENT OR OTHER DEFECTS,
|
||||
ACCURACY, OR THE PRESENCE OR ABSENCE OF ERRORS, WHETHER OR NOT
|
||||
KNOWN OR DISCOVERABLE. WHERE DISCLAIMERS OF WARRANTIES ARE NOT
|
||||
ALLOWED IN FULL OR IN PART, THIS DISCLAIMER MAY NOT APPLY TO YOU.
|
||||
|
||||
b. TO THE EXTENT POSSIBLE, IN NO EVENT WILL THE LICENSOR BE LIABLE
|
||||
TO YOU ON ANY LEGAL THEORY (INCLUDING, WITHOUT LIMITATION,
|
||||
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|
||||
INCIDENTAL, CONSEQUENTIAL, PUNITIVE, EXEMPLARY, OR OTHER LOSSES,
|
||||
COSTS, EXPENSES, OR DAMAGES ARISING OUT OF THIS PUBLIC LICENSE OR
|
||||
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|
||||
ADVISED OF THE POSSIBILITY OF SUCH LOSSES, COSTS, EXPENSES, OR
|
||||
DAMAGES. WHERE A LIMITATION OF LIABILITY IS NOT ALLOWED IN FULL OR
|
||||
IN PART, THIS LIMITATION MAY NOT APPLY TO YOU.
|
||||
|
||||
c. The disclaimer of warranties and limitation of liability provided
|
||||
above shall be interpreted in a manner that, to the extent
|
||||
possible, most closely approximates an absolute disclaimer and
|
||||
waiver of all liability.
|
||||
|
||||
|
||||
Section 6 -- Term and Termination.
|
||||
|
||||
a. This Public License applies for the term of the Copyright and
|
||||
Similar Rights licensed here. However, if You fail to comply with
|
||||
this Public License, then Your rights under this Public License
|
||||
terminate automatically.
|
||||
|
||||
b. Where Your right to use the Licensed Material has terminated under
|
||||
Section 6(a), it reinstates:
|
||||
|
||||
1. automatically as of the date the violation is cured, provided
|
||||
it is cured within 30 days of Your discovery of the
|
||||
violation; or
|
||||
|
||||
2. upon express reinstatement by the Licensor.
|
||||
|
||||
For the avoidance of doubt, this Section 6(b) does not affect any
|
||||
right the Licensor may have to seek remedies for Your violations
|
||||
of this Public License.
|
||||
|
||||
c. For the avoidance of doubt, the Licensor may also offer the
|
||||
Licensed Material under separate terms or conditions or stop
|
||||
distributing the Licensed Material at any time; however, doing so
|
||||
will not terminate this Public License.
|
||||
|
||||
d. Sections 1, 5, 6, 7, and 8 survive termination of this Public
|
||||
License.
|
||||
|
||||
|
||||
Section 7 -- Other Terms and Conditions.
|
||||
|
||||
a. The Licensor shall not be bound by any additional or different
|
||||
terms or conditions communicated by You unless expressly agreed.
|
||||
|
||||
b. Any arrangements, understandings, or agreements regarding the
|
||||
Licensed Material not stated herein are separate from and
|
||||
independent of the terms and conditions of this Public License.
|
||||
|
||||
|
||||
Section 8 -- Interpretation.
|
||||
|
||||
a. For the avoidance of doubt, this Public License does not, and
|
||||
shall not be interpreted to, reduce, limit, restrict, or impose
|
||||
conditions on any use of the Licensed Material that could lawfully
|
||||
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|
||||
|
||||
b. To the extent possible, if any provision of this Public License is
|
||||
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|
||||
minimum extent necessary to make it enforceable. If the provision
|
||||
cannot be reformed, it shall be severed from this Public License
|
||||
without affecting the enforceability of the remaining terms and
|
||||
conditions.
|
||||
|
||||
c. No term or condition of this Public License will be waived and no
|
||||
failure to comply consented to unless expressly agreed to by the
|
||||
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|
||||
|
||||
d. Nothing in this Public License constitutes or may be interpreted
|
||||
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|
||||
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|
||||
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|
||||
|
||||
=======================================================================
|
||||
|
||||
Creative Commons is not a party to its public
|
||||
licenses. Notwithstanding, Creative Commons may elect to apply one of
|
||||
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|
||||
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|
||||
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|
||||
Domain Dedication. Except for the limited purpose of indicating that
|
||||
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|
||||
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|
||||
creativecommons.org/policies, Creative Commons does not authorize the
|
||||
use of the trademark "Creative Commons" or any other trademark or logo
|
||||
of Creative Commons without its prior written consent including,
|
||||
without limitation, in connection with any unauthorized modifications
|
||||
to any of its public licenses or any other arrangements,
|
||||
understandings, or agreements concerning use of licensed material. For
|
||||
the avoidance of doubt, this paragraph does not form part of the
|
||||
public licenses.
|
||||
|
||||
Creative Commons may be contacted at creativecommons.org.
|
||||
|
||||
54
README.md
54
README.md
|
|
@ -1,54 +0,0 @@
|
|||
# Brain/MINDS Marmoset MRI age-specific averaged images
|
||||
|
||||
Authors: Akiko Uematsu<sup>1</sup>, Junichi Hata<sup>2</sup>, Yuji Komaki<sup>3</sup>, Fumiko Seki<sup>1</sup>, Chihoko Yamada<sup>3</sup>, Norio Okahara<sup>3</sup>, Yoko Kurotaki<sup>3</sup>, Erika Sasaki<sup>1,2,3</sup>, Hideyuki Okano<sup>1,2,3</sup>*
|
||||
|
||||
1. Department of Physiology (Okano Lab), Keio University School of Medicine, Keio University School of Medicine
|
||||
2. Laboratory for Marmoset Neural Architecture, RIKEN Brain Science Institute
|
||||
3. Central Institute for Experimental Animals
|
||||
|
||||
*corresponding author: Hideyuki Okano (hidokano@a2.keio.jp)
|
||||
|
||||
## DATASET DESCRIPTION
|
||||
|
||||
The dataset includes gziped NIfTI files (.nii.gz) of MRI T2WI and DTI metrics (FA, MD, RD, and AD) in-vivo data; the ages of the data are 1,3,6,9,12,15,18 months old.
|
||||
|
||||
The creation process of these averaged images is referred to the script of FSL software (https://fsl.fmrib.ox.ac.uk/), `fslvm_2_template`, partially modified; the non-linear registration process was replaced to the script of ANTs (http://stnava.github.io/ANTs/), `antsRegsitrationSyN.sh`. The details are described in the text “Dataset Description and Image Processing”.
|
||||
|
||||
In addition, age-specific DWI templates (.mif files) are provided, which are created using the script of Mrtrix3 (http://www.mrtrix.org/), `population_template`.
|
||||
<br/>
|
||||
You may convert .mif file to NIFTI, extracting b-vector and b-value information by conducting the following Mrtrix3’s command:
|
||||
```
|
||||
# mrconvert dwi_input.mif dwi_output.nii -export_grad_fsl bvec bval
|
||||
```
|
||||
|
||||
## CITATION
|
||||
|
||||
Uematsu, Akiko; Hata, Junichi; Komaki, Yuji; Seki, Fumiko; Yamada, Chihoko; Okahara, Norio; Kurotaki, Yoko; Sasaki, Erika; Okano, Hideyuki.
|
||||
_Brain/MINDS Age-Specific Marmoset Averaged Image Dataset (DataID: 3236)_
|
||||
DOI: https://doi.org/10.24475/bminds.mri.kau.3236
|
||||
|
||||
|
||||
## RELATED PUBLICATION(S)
|
||||
|
||||
Uematsu, A., Hata, J., Komaki, Y., Seki, F., Yamada, C., Okahara, N., Okahara., Kurotaki, Y., Sasaki E. & Okano, H. (2017).
|
||||
_Mapping orbitofrontal-limbic maturation in non-human primates: A longitudinal magnetic resonance imaging study_. NeuroImage 163, 55-67.
|
||||
DOI: https://doi.org/10.1016/j.neuroimage.2017.09.028
|
||||
|
||||
## LICENSE
|
||||
|
||||
This work is licensed under a [Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License](http://creativecommons.org/licenses/by-nc-nd/4.0/).
|
||||
|
||||
## CONTENT
|
||||
|
||||
| File name | Description |
|
||||
| ---- | ---- |
|
||||
|[`About_ImageProcessing.docx`](About_ImageProcessing.docx)|The details of Dataset Description and Image Processing (.docx)|
|
||||
|[`T2WI/`](T2WI/)|T2 weighted image at 1,3,6,9,12,15,18 months old. (.nii.gz)|
|
||||
|[`DTI/`](DTI/)||
|
||||
| [`FA/`](DTI/FA/)|Fractional Anisotropy images at 1,3,6,9,12,15,18 months old. (.nii.gz)|
|
||||
| [`MD/`](DTI/MD/)|Mean Diffusivity images at 1,3,6,9,12,15,18 months old. (.nii.gz)|
|
||||
| [`RD/`](DTI/RD/)|Radial Diffusivity images at 1,3,6,9,12,15,18 months old. (.nii.gz)|
|
||||
| [`AD/`](DTI/AD/)|Axial Diffusivity images at 1,3,6,9,12,15,18 months old. (.nii.gz)|
|
||||
|[`DWI/`](DWI/)|Study and age-specific template of DWI at 1,3,6,9,12,15,18 months old (30 axis with two b0) |
|
||||
|[`FOD/`](FOD/)|Fiber Orientation Distribution images determined by constrained spherical deconvolution at 1,3,6,9,12,15,18 months old.|
|
||||
|
||||
|
|
@ -1 +0,0 @@
|
|||
../.git/annex/objects/22/VZ/MD5E-s3636239--4ff34033f33138109c7c4a2c25d0182f.nii.gz/MD5E-s3636239--4ff34033f33138109c7c4a2c25d0182f.nii.gz
|
||||
|
|
@ -1 +0,0 @@
|
|||
../.git/annex/objects/19/XW/MD5E-s2785623--dcfba420b1a87705c2fcd8fc6e2e6ea7.nii.gz/MD5E-s2785623--dcfba420b1a87705c2fcd8fc6e2e6ea7.nii.gz
|
||||
|
|
@ -1 +0,0 @@
|
|||
../.git/annex/objects/32/J9/MD5E-s3025257--057720f8b42ce8191a954076d4517fe2.nii.gz/MD5E-s3025257--057720f8b42ce8191a954076d4517fe2.nii.gz
|
||||
|
|
@ -1 +0,0 @@
|
|||
../.git/annex/objects/V2/kJ/MD5E-s2943959--079fe1798436921a43b732d7b9912d72.nii.gz/MD5E-s2943959--079fe1798436921a43b732d7b9912d72.nii.gz
|
||||
|
|
@ -1 +0,0 @@
|
|||
../.git/annex/objects/Q1/MX/MD5E-s3077004--76a6cc9907afaf754a874475165c26aa.nii.gz/MD5E-s3077004--76a6cc9907afaf754a874475165c26aa.nii.gz
|
||||
|
|
@ -1 +0,0 @@
|
|||
../.git/annex/objects/Ww/02/MD5E-s2958812--300d4e97c03cc5ffd8ae6dca23cc6db8.nii.gz/MD5E-s2958812--300d4e97c03cc5ffd8ae6dca23cc6db8.nii.gz
|
||||
|
|
@ -1 +0,0 @@
|
|||
../.git/annex/objects/gm/8W/MD5E-s2698255--26bb0f5d16e371ef0d52692f823beef0.nii.gz/MD5E-s2698255--26bb0f5d16e371ef0d52692f823beef0.nii.gz
|
||||
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|
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||||
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||||
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||||
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||||
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||||
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||||
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|
||||
1668737446.345520295s 1 d95d6d5a-1116-4d05-b8cc-da90db33bbb6
|
||||
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