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Registration in 3D Slicer

Registration Case Library - Call for Datasets

Let us help you turn your registration problem into a success story. If you have an interesting or vexing registration problem that is not yet covered in our Library , send us your case: we will try to register it for you and then add it to the library. This is a time and resource limited service available until October 1, 2010.

What We Will Do & Example

• we will seek the best possible registration obtainable with the most recent version of 3DSlicer.
• we will post the anonymized image data as a new case in our Slicer Registration Case Library. Your case will receive its own page, similar to this.
• the exact workflow of obtaining the registration will be posted alongside the data as a guided step-by-step tutorial
• the parameters for successful registration will also be posted as a loadable custom "Registration Preset" file that you can load directly into slicer and apply on your data
• if you can provide us with fiducial pairs that define a good registration, we will use them in optimization efforts. You can use the 3DSlicer Fiducials module to select one or more pairs of points that should line up. Detailed instructions below.
• the registration objective & background, main challenges and strategy recommendations will be posted.
• and acknowledgment of the data source is posted, if desired with a link to your institution and/or related research papers
• example of what the final shared product will look like

Limitations/Disclaimer

• we will assist only with 3DSlicer registration software.
• this is a time-limited service, available in a first trial until October 1, 2010.
• we cannot guarantee a particular result or a specific turnaround time
• all shared datasets must be anonymized. High-resolution structural head MRI may have to be posted with applied defacing, i.e. removed image content of facial features that might be recognizable as a 3D rendering.
• Sharing anonymized data in most cases is IRB exempt based on Code of Federal Regulations 45 CFR 46.101(b), which lists as exemption category 4:

 Unless otherwise required by department or agency heads, [...] the following categories are exempt [...]: 

 4.Research involving the collection or study of existing data, documents, records , pathological specimens, 
 or diagnostic specimens, if these sources are publicly available or if the information is recorded by the 
 investigator in  such a manner that subjects cannot be identified, directly or through identifiers linked 
 to the subjects.

• if you do not have the ability to anonymize the data we may, with some limitations, be able to do that for you also, but you will need to obtain an IRB approval first from your institution and enter a direct collaborative agreement with us.

• if your case pairing of images is already presented in the library, we expect that you have tried the approach & settings presented there already. If to no avail we will gladly consider it.

Procedure

Here's how to get started:

• 1. if you have not yet done so, browse/search the Registration Case Library for a scenario similar to yours. If you find one matching in organ, modality and contrast, try out the parameter settings and procedures suggested there. If that fails, go to step 2.
• 2. Drop us a line with the following info: the image type and size of your case, the registration objective, if avail. criteria for evaluating a good registration, time constraints if you have any
• 3. If you can provide us with fiducial pairs that define a good registration, we will use them in optimization efforts. You can use the 3DSlicer Fiducials module to select one or more pairs of points that should line up. Step by step guidelines for picking fiducial pairs are here and Detailed documentation on the fiducials module is here.