multiframe (multiple sclices) dicom to png or jpg

Hi,

I want to convert multiframe dicom to png or jpg.

On internet noramlly people are doing single dicom to single png, but how to convert, if dicom is a multframe file.

Answer 1

[Walter Roberson]

There is more than one way of storing multiple frames in a dicom file. If you are using the terminology "frame" then chances are that when you use dicomread() you will get back an array that has all of the data already present in a single 3D or 4D array, with the last dimension being the frame number.

The alternative DICOM storage methods, that need more work, are usually talked about with the terminology "sequences". Those kinds of files are common for some modalities, but those are modalities that I have not happened to have reason to work with.

Once you have a multidimensional array, then to store into png (jpg is not recommended for science work!), you can loop using imwrite() one page at a time. Or you can use montage(). Or you can use reshape() (perhaps with permute()) to lay out the images beside each other in an array, and imwrite() that array. Writing one frame per file would be the more common method.

[Rehan]

ok thanks for suggestion,i'll try and update you.

[Rehan]

I have tried it in python and it worked

import SimpleITK as sitk

import os

image = sitk.ReadImage('dicom file')

depth=image.GetDepth()

nda = sitk.GetArrayFromImage(image)

print(nda.shape)

for i in range(depth):

img = sitk.GetImageFromArray(nda[i])

writer = sitk.ImageFileWriter()

writer.SetFileName(os.path.join('out', str(i)+'.png' ))

writer.Execute(img)