Preparing your local directories for image upload

Functional MRI Data Example:

Place only the EPI data and the behavioral data (EPrime data file) for each run of a task into a directory under the ROOT_IMAGE_DIR

Place only auditory or reaction time behavioral data into separate directories

Place only other “extra” behavioral data files into a separate directory

Place only structural image data into a separate directory, one for each series collected.

Example: fMRI study in DICOM format collecting 3 series of the Sternberg task, 2 series of an auditory oddball task, an auditory EPrime setup, a T1, and a T2. Behavioral data was collected with Eprime

Local directory structure:

ROOT_IMAGE_DIR/Sternberg1/*.dcm + Eprime Files

ROOT_IMAGE_DIR/Sternberg2/*.dcm + Eprime Files

ROOT_IMAGE_DIR/Sternberg3/*.dcm + Eprime Files

ROOT_IMAGE_DIR/AuditoryOddball1/*.dcm + Eprime Files

ROOT_IMAGE_DIR/AuditoryOddball2/*.dcm + Eprime Files

ROOT_IMAGE_DIR/AuditorySetup/Eprime Files

ROOT_IMAGE_DIR/t1/*.dcm

ROOT_IMAGE_DIR/t2/*.dcm

**Note, the choice of directory names is arbitrary, so Sternberg1 might have just been sirp1, etc.

Structural MRI Data Example:

Place only structural image data into a separate directory, one for each series collected.

Example: MRI study in DICOM format collecting a T1, a T2, and a proton density image.

Local directory structure:

ROOT_IMAGE_DIR/t1/*.dcm

ROOT_IMAGE_DIR/t2/*.dcm

ROOT_IMAGE_DIR/pd/*.dcm

**Note, the choice of directory names is arbitrary, so pd might have been PD or pd1, etc.

Upload with Structural Segmentations:

Organize functional or structural data as indicated above

Put segmentation outputs into a separate directory

Example: MRI study in DICOM format collecting a T1, a T2, a proton density image, and segmentations.

Local directory structure:

ROOT_IMAGE_DIR/t1/*.dcm

ROOT_IMAGE_DIR/t2/*.dcm

ROOT_IMAGE_DIR/pd/*.dcm

ROOT_IMAGE_DIR/Segmentations/*.* (may have multiple volumes and text files, etc).

**Note, the choice of directory names is arbitrary, so Segmentations might have been labels, etc.

Authors/Contact List:

Dingying Wei - UCI (dywei@uci.edu)

David Keator - UCI (dbkeator@uci.edu)