Now we simply need to save this and choose a different file format. The CT scan should now be open in the active scene. After a short wait you should get a window that says the study was added successfully as shown below. You may have to wait a minute while the study copies. It will also ask you if it is OK to copy the images into the database. Drag the entire folder onto the 3D Slicer window and drop it onto the 3D Slicer window, as shown in the picture.ģD Slicer will ask you if you want to load the images into the database. The DICOM file format consists of a folder that has many subfolders and files within it. Open 3D Slicer and open the folder that contains your DICOM files. We will simply open the study in 3D Slicer and without modification save it in the NRRD format. Just to be clear, the CT scan we are using for this tutorial is already anonymized, so you needle worry about any privacy issues.Ī variety of software programs will allow us to save a file in NRRD format, but today we will be using 3D Slicer. The NRRD format is ANONYMIZED, so it guarantees that confidential patient information isn’t transmitted over the Internet.

Once we have our scan data and software, our next step is to convert the scan, which is in DICOM format, to an NRRD file, which is the file format the automated conversion service accepts. At this time the automatic conversion service only works with CT scans. If you are using your own scan for this tutorial, make sure you are using a CT scan, and NOT an MRI or ultrasound. The picture below shows the image management desk at my hospital where I can pick of a disk with my CT scans on it. Some may ask for a small fee to cover the expense of the disk, but many will give you the disk for free once you fill out some paperwork. Most hospitals will give you a CD or DVD that contains your CT scan in the radiology or medical imaging department.

That folder contains the DICOM files.Īlternatively, you can use your own CT scan if you’ve ever had one performed for you. You should have a folder with a name composed of lots of numbers, “1.3.6.1.9…” etc. Download the DICOM CT scan data here and unzip the file. We will also use the automated medical scan conversion service on this website later in this tutorial which also requires you to have an account, so go ahead and register now if you haven't already. You will need to register for free account at to download the file. You will need a medical CT scan to follow along for this tutorial, and the one we are using here is available for free download at this link.

Efilm lite export images