[Blends-commit] [SCM] science branch, master, updated. 626032d706d22e76e00c9bbe03a0fa1af4842279

Tue Nov 26 21:31:55 UTC 2013

The following commit has been merged in the master branch:
commit ec991acd8a544f59a272642bbef3b8e585d164e9
Author: Andreas Tille <tille at debian.org>
Date:   Tue Nov 26 22:25:36 2013 +0100

    Remove redundant information from binary packages fsldata that is in Vcs - the citation information is sended as patch to the maintainers and left here until it is taken over in Git

diff --git a/tasks/neuroscience-datasets b/tasks/neuroscience-datasets
index 84b53b8..92180b5 100644
--- a/tasks/neuroscience-datasets
+++ b/tasks/neuroscience-datasets
@@ -54,165 +54,60 @@ Remark: This package is waiting for the Debian data package archive to become
 
 Depends: fsl-harvard-oxford-atlases
 License: custom, non-commerical
-Responsible: NeuroDebian team <team at neuro.debian.net>
 Remark: This package is waiting for the Debian data package archive to become available.
 Pkg-URL: http://neuro.debian.net/pkgs/fsl-harvard-oxford-atlases.html
-Pkg-Description: probabilistic atlas of human cortical and subcortical brain areas
- Probabilistic atlases covering 48 cortical and 21 subcortical structural areas,
- derived from structural data and segmentations kindly provided by the Harvard
- Center for Morphometric Analysis.
- .
- T1-weighted images of 21 healthy male and 16 healthy female subjects
- (ages 18-50) were individually segmented using semi-automated tools developed
- in-house. The T1-weighted images were affine-registered to MNI152 space using
- FLIRT (FSL), and the transforms then applied to the individual labels. Finally,
- these were combined across subjects to form population probability maps for
- each label.
- .
- This package is part of FSL.
 Published-Authors: Rahul S Desikan and Florent Segonne and Bruce Fischl and Brian T Quinn and Bradford C Dickerson and Deborah Blacker and Randy L Buckner and Anders M Dale and R Paul Maguire and Bradley T Hyman and Marilyn S Albert and Ronald J Killiany
 Published-Title: An automated labeling system for subdividing the human cerebral cortex on MRI scans into gyral based regions of interest.
 Published-In: Neuroimage, 31: 968–980
 Published-Year: 2006
 Published-DOI: 10.1016/j.neuroimage.2006.01.021
 
-
 Depends: fsl-juelich-histological-atlas
-License: custom, non-commerical
-Responsible: NeuroDebian team <team at neuro.debian.net>
 Remark: This package is waiting for the Debian data package archive to become available.
 Pkg-URL: http://neuro.debian.net/pkgs/fsl-juelich-histological-atlas.html
-Pkg-Description: brain atlas based on cyto- and myelo-architectonic segmentations
- A probabilistic atlas created by averaging multi-subject post-mortem cyto- and
- myelo-architectonic segmentations, performed by the team of Profs Zilles and
- Amunts at the Research Center Jülich and kindly provided by Simon Eickhoff.
- .
- The atlas contains 32 grey matter structures and 10 white matter structures.
- This is the same data as used in Eickhoff's Anatomy Toolbox v1.5. The atlas is
- based on the microscopic and quantitative histological examination of ten human
- post-mortem brains. The histological volumes of these brains were 3D
- reconstructed and spatially normalised into the space of the MNI single
- subject template to create a probabilistic map of each area. For the FSL
- version of this atlas, these probabilistic maps were then linearly transformed
- into MNI152 space.
- .
- This package is part of FSL.
 Published-Authors: Simon B Eickhoff, Klaas E Stephan, Hartmut Mohlberg, Christian Grefkes, Gereon R Fink, Katrin Amunts, Karl Zilles
 Published-Title: A new SPM toolbox for combining probabilistic cytoarchitectonic maps and functional imaging data.
 Published-In: Neuroimage, 25: 1325–1335
 Published-Year: 2005
 Published-URL: http://www.ncbi.nlm.nih.gov/pubmed/15850749
 
-
 Depends: fsl-jhu-dti-whitematter-atlas
-License: custom, non-commerical
-Responsible: NeuroDebian team <team at neuro.debian.net>
 Remark: This package is waiting for the Debian data package archive to become available.
 Pkg-URL: http://neuro.debian.net/pkgs/fsl-jhu-dti-whitematter-atlas.html
-Pkg-Description: human brain white-matter atlas
- There are two white-matter atlases, both kindly provided by Dr. Susumu Mori,
- Laboratory of Brain Anatomical MRI, Johns Hopkins University.
- .
- In the ICBM-DTI-81 white-matter labels atlas, 50 white matter tract labels
- were created by hand segmentation of a standard-space average of diffusion MRI
- tensor maps from 81 subjects; mean age 39 (18:59), M:42, F: 39. The diffusion
- data was kindly provided by the ICBM DTI workgroup.
- .
- In the JHU white-matter tractography atlas, 20 structures were identified
- probabilistically by averaging the results of running deterministic
- tractography on 28 normal subjects (mean age 29, M:17, F:11).
- .
- This package is part of FSL.
 Published-Authors: Kegang Hua, Jiangyang Zhang, Setsu Wakana, Hangyi Jiang, Xin Li, Daniel S Reich, Peter A Calabresi, James J Pekar, Peter C M van Zijl, Susumu Mori
 Published-Title: Tract probability maps in stereotaxic spaces: analyses of white matter anatomy and tract-specific quantification.
 Published-In: Neuroimage, 39: 336–347
 Published-Year: 2008
 Published-DOI: 10.1016/j.neuroimage.2007.07.053
 
-
 Depends: fsl-mni-structural-atlas
-License: custom, non-commerical
-Responsible: NeuroDebian team <team at neuro.debian.net>
 Remark: This package is waiting for the Debian data package archive to become available.
 Pkg-URL: http://neuro.debian.net/pkgs/fsl-mni-structural-atlas.html
-Pkg-Description: hand-segmented single-subject human brain atlas
- 9 anatomical structural regions, kindly provided by Jack Lancaster at the
- Research Imaging Center, UTHSCSA, Texas (originally from the McConnell Brain
- Imaging Centre, MNI).
- .
- A single subject's structural image was hand segmented, and the labels were
- then propagated to more than 50 subjects' structural images using nonlinear
- registration. Each resulting labelled brain was then transformed into MNI152
- space using affine registration, before averaging segmentations across
- subjects to produce the final probability images.
- .
- This package is part of FSL.
 Published-Authors: J. Mazziotta, A. Toga, A. Evans, P. Fox, J. Lancaster, K. Zilles, R. Woods, T. Paus, G. Simpson, B. Pike and others
 Published-Title: A probabilistic atlas and reference system for the human brain: International Consortium for Brain Mapping (ICBM)
 Published-In: The Royal Society Philosophical Transactions B, 356: 1293–1322
 Published-Year: 2001
 
-
 Depends: fsl-talairach-daemon-atlas
-License: custom, non-commerical
-Responsible: NeuroDebian team <team at neuro.debian.net>
 Remark: This package is waiting for the Debian data package archive to become available.
 Pkg-URL: http://neuro.debian.net/pkgs/fsl-talairach-daemon-atlas.html
-Pkg-Description: structural anatomy labels of the Talairach atlas
- A conversion of the original Talairach structural labellings, kindly provided
- by Jack Lancaster and Diana Tordesillas Gutiérrez at the Research Imaging
- Center, UTHSCSA, Texas.
- .
- This is a digitised version of the original (coarsely sliced) Talairach atlas
- (Lancaster 2000) after the application of a correcting affine transform
- (Lancaster 2007) to register it into MNI152 space.
- .
- This package is part of FSL.
 Published-Authors: J L Lancaster, M G Woldorff, L M Parsons, M Liotti, C S Freitas, L Rainey, P V Kochunov, D Nickerson, S A Mikiten, P T Fox
 Published-Title: Automated Talairach atlas labels for functional brain mapping.
 Published-In: Human Brain Mapping, 10: 120–131
 Published-Year: 2000
 Published-URL: http://www.ncbi.nlm.nih.gov/pubmed/10912591
 
-
 Depends: fsl-oxford-thalamic-connectivity-atlas
-License: custom, non-commerical
-Responsible: NeuroDebian team <team at neuro.debian.net>
 Remark: This package is waiting for the Debian data package archive to become available.
 Pkg-URL: http://neuro.debian.net/pkgs/fsl-oxford-thalamic-connectivity-atlas.html
-Pkg-Description: probabilistic brain atlas of thalamic white-matter connectivity
- A probabilistic atlas of 7 sub-thalamic regions, segmented according to their
- white-matter connectivity to cortical areas, kindly provided by Heidi
- Johansen-Berg and Timothy Behrens, FMRIB.
- .
- This connectivity atlas reports probability of anatomical connection from
- points in the thalamus to each of 7 cortical zones. These probabilities are
- calculated using probabilistic diffusion tractography in multiple subjects.
- .
- This package is part of FSL.
 Published-Authors: TEJ Behrens, H. Johansen-Berg, MW Woolrich, SM Smith, CAM Wheeler-Kingshott, PA Boulby, GJ Barker, EL Sillery, K. Sheehan, O. Ciccarelli and others
 Published-Title: Non-invasive mapping of connections between human thalamus and cortex using diffusion imaging.
 Published-In: Nature Neuroscience, 6: 750–757
 Published-Year: 2003
 
-
 Depends: fsl-bangor-cerebellar-atlas
-License: custom, non-commerical
-Responsible: NeuroDebian team <team at neuro.debian.net>
 Remark: This package is waiting for the Debian data package archive to become available.
 Pkg-URL: http://neuro.debian.net/pkgs/fsl-bangor-cerebellar-atlas.html
-Pkg-Description: probabilistic atlas of the human cerebellum
- This is a probabilistic atlas of the cerebellar lobules in the anatomical
- space defined by the MNI152 template. Lobules were masked separately on
- T1-weighted MRI scans (1 mm isotropic resolution) of 20 healthy young
- participants (10 male, 10 female, average age 23.7 yrs). These cerebella were
- then aligned to the standard or non-linear version of the whole-brain MNI152
- template using a number of commonly used normalization algorithms, or to a
- previously published cerebellum-only template (Diedrichsen, J., 2006. A
- spatially unbiased atlas template of the human cerebellum. NeuroImage 33,
- 127-138).
- .
- This package is part of FSL.
 Published-Authors: Jörn Diedrichsen, Joshua H Balsters, Jonathan Flavell, Emma Cussans, Narender Ramnani
 Published-Title: A probabilistic MR atlas of the human cerebellum.
 Published-In: Neuroimage, 46: 39–46

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