DataRepositoryNew - Revision history

JChris.FillionR: Fix MediaWiki table formatting issue discovered while converting to GitHub Flavored Markdown using pandoc (via https://github.com/outofcontrol/mediawiki-to-gfm)

2023-04-11T16:25:27Z

Fix MediaWiki table formatting issue discovered while converting to GitHub Flavored Markdown using pandoc (via https://github.com/outofcontrol/mediawiki-to-gfm)

Melonakos at 17:43, 17 June 2008

2008-06-17T17:43:41Z

Melonakos at 17:36, 17 June 2008

2008-06-17T17:36:42Z

Melonakos at 17:34, 17 June 2008

2008-06-17T17:34:01Z

Melonakos: New page: Back to Resources Page NOTOC = Overview of Data Repository = NA-MIC Driving Biological Projects investigators have made several datasets available to NA-MIC developers....

2008-06-17T17:25:35Z

New page: Back to Resources Page __NOTOC__ = Overview of Data Repository = NA-MIC Driving Biological Projects investigators have made several datasets available to NA-MIC developers....

New page

Back to [[Resources|Resources Page]]
__NOTOC__
= Overview of Data Repository =

NA-MIC Driving Biological Projects investigators have made several datasets available to NA-MIC developers. This page provides information on how to obtain access to these datasets.

= Harvard/Brockton VA Data and Images=

{| cellpadding="10"

| style="width:15%" | [[Image:Shapecaudate.png|200px]]
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== [[DataRepositoryHarvard|Brockton VA/Harvard Structural and DTI Images]] ==

← Older revision		Revision as of 16:25, 11 April 2023
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	== [[DataRepositoryIrvine\|Irvine Data and Images]] ==		== [[DataRepositoryIrvine\|Irvine Data and Images]] ==
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		+	\|}

← Older revision		Revision as of 17:43, 17 June 2008
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	NA-MIC Driving Biological Projects investigators have made several datasets available to NA-MIC developers. This page provides information on how to obtain access to these datasets.		NA-MIC Driving Biological Projects investigators have made several datasets available to NA-MIC developers. This page provides information on how to obtain access to these datasets.
		+
		+	== Accessing NA-MIC Data ==
		+
		+	''BIRN Controlled Infrastructure''
		+
		+	FMRI and DTI datasets are currently available to NAMIC participants via the BIRN Controlled Infrastructure. In order to access this data, please use the following steps to create a BIRN account with NAMIC permissions:
		+
		+	* ** Go to the [https://portal.nbirn.net:443/gridsphere/gridsphere?cid=apply portal] and follow directions to set up a member account (Your site may not be listed - please state that you are a NA-MIC participant in the interest section)
		+
		+	* ** Then [https://portal.nbirn.net:443/gridsphere/gridsphere?cid=myActivitiesPortlet&gs_action=handleMembershipRequests&Fnf_action=Request+Membership&up=Fnf&Fnf_projectID=3 request NAMIC related permissions]. See the [[DataRepository#Notes\|Notes section]] for more information.
		+
		+
		+	* ** Before you download data using the account you have created, please confirm with your PI that you have received adequate human subject training. If your site does not provide this training, please do this [https://www.citiprogram.org/registerselectinstitution.asp?strKeyID=9934456536544677479770 Human Subject Online Training] as an affiliate of Brigham and Women's Hospital and send a copy of your certificate to your PI for their records.
		+
		+	''Search for NAMIC Data''
		+
		+	Users earch for data available on the BIRN data grid through metadata applied to the data itself. Each data object and collection can be assigned any number of metadata tags. Currently the metadata tags consist of items such as: Modality (DTI, T1, T2, etc.), Institution, etc.
		+
		+	To see an example of metadata on a data file, take a look at the following UCI file: First
		+	* Ensure you aare logged into the [https://portal.nbirn.net Portal]
		+	* Then view the [https://portal.nbirn.net:443/gridsphere/gridsphere?cid=srbfilebrowser&gs_action=gotoDirectory&up=21I&21I_dirpath=%2Fhome%2FProjects%2FStudy5000__0005%2FFiles%2FArchive&JavaScript=enabled contents of that archive]
		+	* Then to search for data, click the Query Metadata button [[image:Tango_search_metadata_large.png]]
		+
		+	''Replication of Data''
		+
		+	Currently, the NAMIC data sets are stored in BIRN at:
		+
		+	/home/Projects/NAMIC__0003/Files (physicall located at NCMIR) <br /> /home/Projects/Study5000__0005/Files (physically located at UCI)
		+
		+	For redundancy in case a Birn Rack were to go offline we have replicated the data to the BWH rack in preparation for the Programmer's Week.
		+
		+	This can be seen when using 'Sls -a'
		+
		+	[jgerk@ncmir-gpop scratch]$ Sls -a UCI07110773.tgz
		+	jgerk 0 z-ucsd-ncmir-nas1 451315092 2005-02-18-14.00 % /home/Projects/Study5000__0005/Files/Archive/UCI07110773.tgz
		+	jgerk 1 z-harvard-bwh-nas1 451315092 2005-06-24-17.02 % /home/Projects/Study5000__0005/Files/Archive/UCI07110773.tgz
		+
		+	During regular use it is not important that the file resides in two places, but it should be understood that removing the file will result in removing both copies.
		+
		+	As more data is added to NAMIC we can periodically run the following command to update the BWH resource (provided you have the correct permissions).
		+
		+	Sbkupsrb -r -S z-harvard-bwh-nas1 Files

← Older revision		Revision as of 17:36, 17 June 2008
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	== [[DataRepositoryDartmouth\|Dartmouth Data and Images]] ==		== [[DataRepositoryDartmouth\|Dartmouth Data and Images]] ==
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		+	\|-
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		+	\| \| [[Image:MBIRNseedROIcc1.png\|200px]]
		+	\| \|
		+
		+	== [[DataRepositoryIrvine\|Irvine Data and Images]] ==