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Welcome to the CNDA Open House

Welcome to the CNDA Open House. Jenny Gurney June 15, 2011. Accessing the CNDA CNDA Organization Projects/Subjects/Experiments Sharing Uploading Images to the CNDA Directly from the Scanner Via Uploader Applet Prearchive /Archive Downloading Images from the CNDA

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Welcome to the CNDA Open House

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  1. Welcome tothe CNDAOpen House Jenny Gurney June 15, 2011

  2. Accessing the CNDA • CNDA Organization • Projects/Subjects/Experiments • Sharing • Uploading Images to the CNDA • Directly from the Scanner • Via Uploader Applet • Prearchive/Archive • Downloading Images from the CNDA • Searching/Stored Searches • Pipelines • Contacting CNDA/Reporting a Problem Today’s Topics

  3. Go to https://cnda.wustl.edu • Log in • Already registered: Enter user id and password • Registered, but lost id or password: Click “Forgot login or password” • New user: Click “Register” and fill out the form. Once you have your user id, your Project owner or the CNDA Help Desk will need to grant you access to Projects. Accessing the CNDA

  4. Subjects Experiments Project A Project is the CNDA representation of your research study.

  5. Collaborator: a basic account which can… • View data/images • Download data/images • Member: has all of Collaborator’s privileges and can • Upload data/images • Create data • Edit data • Run processing pipeline • Owner: has all of Member’s privileges and can • Delete data/images • Set up processing pipelines for Project • Invite people to Project • Remove people from Project User Access Roles

  6. Subject • A project contains one or more Subjects. • A subject is the CNDA representation of a study participant.

  7. A Project also contains Experiments. An Experiment is the CNDA representation of your data. • Each experiment belongs to one Subject. • Usually the Subject and Experiment belong to the same Project, but not always. Experiment

  8. Sharing Subjects

  9. Sharing Experiments

  10. The CNDA is a research (versus clinical) data repository • Protected Health Information such as patient name, initials, social security number, phone number, and address do not belong in the CNDA No PHI in the CNDA

  11. Uploading Images from the Scanner

  12. To add Additional Information, first highlight the MR session in Patient Browser

  13. Click Edit, then click on Correct

  14. *See next page for correct Additional info format. Enter info* here, then click OK.

  15. Tagging your DICOM In “Additional info” type: Project:ProjectIDSubject:SubjectIDSession:SessionID Example: Project:DemoProject Subject:subj001 Session:subj001_MR1

  16. To send a session to the CNDA, first select a session.

  17. Then select Transfer

  18. Select CNDA, then click Send.

  19. Uploading through the Uploader Applet

  20. Prearchive versus Archive

  21. Two general methods: CNDA Website Command Line Tools (REST API) Downloading Images from the CNDA

  22. Searching/Stored Searches

  23. Pipelines help to process your raw data. By far, the two most popular pipelines are: • 4dfp BOLD Preprocessing • FreeSurfer • fBirn Phantom Pipelines

  24. Location: East Building #3334 (You are here.) • Email: cnda-help@wustl.edu • Phone: (314) 286-0549 • Web form: At the top of any page in the CNDA, click the “Report a problem” link. CNDA Help Desk Contact Information

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