Osirix lite draw roi
Using a graphical editing program, such as Seashore for the Mac, which is free, the images were resized so that all of them would be 605 x 455 pixels. The different image sizes are seen in the following screen capture. Because of this, the stack of images cannot be aligned pixel by pixel from one image to the next. This demonstrates that the images are nearly the same dimensions in horizontal and vertical pixels, however, they are slightly different sizes. So we go back and look at the original files that were imported into Osirix using the Inspector.
#OSIRIX LITE DRAW ROI HOW TO#
There is not much information provided by the error message as how to proceed further. Unfortunately, we encounter a volume rendering error as demonstrated in the image below. We now attempt to perform a 3-D volume rendering as shown in the image above. For our training purpose, 0.33 mm should be fine for the pixel size with an image spacing of 6mm from the given spacing of the images. Using the length measurement tool in Osirix, we can determine the number of pixels it takes to traverse 15 cm or 150 mm along the ruler which is included in the image.įrom the image above, measuring 150 mm along the ruler, we see that the length is 456.725 pixels. axis in Osirix, and the different images are taken perpendicular to the Z. axis in Osirix, the vertical dimension on the image represents the Y. For three-dimensional reconstructions, we will assume that the horizontal dimension of the image represents the X. We will assume that the horizontal and vertical pixel dimensions are the same. The image also has a centimeter scale on it from which we can ascertain the pixel sizes. You will see the image as seen in the following image.Īccording to the information sent with the images, these images represent cross-sections of a structure taken at intervals of 6 mm.
Once the images are imported into Osirix, open the images in a 2-D window by double-clicking on the study name. Please note that the names of the files will be imported into sequence that the appear in the Finder when sorted by file name as seen above. Now, when the images are imported into Osirix by pointing at the SandStoneOriginalsRenamed, they are all entered into the database as one series. To correct this problem, the images were renamed as seen in the directory SandStoneOriginalsRenamed as seen below.
#OSIRIX LITE DRAW ROI SERIES#
The names of the images in the alpha portion of the name are different, therefore the images were imported into two different studies by Osirix rather than into one series as seen below. Here we see the first problem with the images. This will import the images in the selected directory into Osirix. After clicking on import, point to the name of the directory and click open. The first step is to import the directory of images into Osirix. There are five images which were sent to me and they were saved in the subdirectory called SandStoneOriginals. I am showing all of the steps in this tutorial from the user sent images to the 3-D reconstructions because they illustrate common errors that users may encounter in learning this process. The original set of images, as well as subsequent iterations of these are available from. I will provide the steps used to create a three-dimensional reconstruction in Osirix from a user's images which were sent to me. Because of this, the three-dimensional reconstructions are based on the grayscale representation of any color images used as input for the system. Typically, this data is grayscale rather than color. You also have to realize that Osirix was written primarily for radiographic data. If correct aspect ratios and calibration are not needed, suitable pixel sizes and spacing to produce a reasonable reconstruction can be used. The names of the images must sort in geometric order corresponding to the location of the image slice when they are sorted by name in the Finder.Ī method for determining the pixel size and spacing of the images must be available to get geometrically accurate reconstructions. The series of images needs to be placed in a separate directory for import. The cross-sections need to be spaced at uniform intervals through the three-dimensional volume.Įach of the cross sectional images needs to be aligned to the image below and above.Įach of the cross-sectional images needs to be the same width and height in pixels. The input image data needs to have the following characteristics: This process is actually quite easy to achieve, however, certain specifications for the input data needs to be observed. Users of Osirix have asked on multiple occasions how to produce three-dimensional reconstructions from a series of images which are two-dimensional slices through a three-dimensional structure. Stereotactic Radiosurgery Institute, Gurnee, IL