DICOM data is the easiest to import. Currently MR, CT, SR, CR, US, and OT modalities are supported. Place the dicom files in the
/nidb/dicomincoming directory. The DICOM files must be uniquely named and they must not be in sub directories.
Once the files are in place, the parsedicom module should pick up the new files, parse them, and archive them. It should match new data to existing subjects, or create new subjects if they do not exist. It matches based on Name, DOB, and Sex.
NiDB Data Packages
Data exported through the NiDB export process can be imported by placing the .tar.gz file into the
/nidb/packageimport directory. The import module will automatically parse the contents of the file and add the data to the archive.
ABIDE – Provided by the INDI project, this project has collected imaging and phenotypic data for 1,112 subjects and made them available for anyone to download and analyze. It is possible to import this dataset into NIDB using a script. Follow these instructions to import ABIDE imaging and phenotype data into your installation of NIDB.
- Install NIDB on your own server, or download the virtual machine (VM).
- Install FSL on your server (FSL is already installed on the VM)
- Download the ABIDE data .tgz files to a directory such as /nidb/import/abide
- In the
- Perform the following command only once to import the phenotypic data:
- Data should now be imported!
ABIDE Dataset list: Caltech, CMU_a, CMU_b, KKI, Leuven_1, Leuven_2, MaxMun_a, MaxMun_b, MaxMun_c, MaxMun_d, NYU, OHSU, Olin, Pitt, SBL, SDSU, Stanford, Trinity, UCLA_1, UCLA_2, USM, Yale