Using DICOM images with MONAI

Hi team,

Is there any way to load DICOM images with MONAI server and use it for labelling?

Generally the nifti images which i have in the ec2 server. i will load them using MONAI while starting the server using below command monailabel start_server --app apps/deepedit --studies datasets/Task02_Heart/imagesTr --conf epistemic_enabled true

But similar approach is not working for DICOM images. When i click on fetch next image in the 3d slicer. It raising exception as no images found.

from the logs i could see that it is expecting images of only these formats ['*.nii.gz', '*.nii', '*.nrrd']

Please let me know is there any way to use my DICOM images.

Thanks&Regards, Jani Basha S.

[j-sieger]

Hi @GhTara , For converting dicom to nifti u can follow the links provided by @diazandr3s . But i had 60 to 80 slices of dicom files for each patient. But in your case u have only 1 file per patient. Not sure how will it look like in 3d space with single slice

[diazandr3s]

Hi @GhTara,

You may find this useful:

• https://github.com/icometrix/dicom2nifti
• If it is a small number of images: Load the image in 3D Slicer and then save it in NIFTI OR https://www.onlineconverter.com/dicom-to-nifti