DOI: 10.57760/sciencedb.36270
title: Medical Imaging Format Conversion Software
title: 医学影像格式转换软件

description: Software Introduction In medical imaging research and AI applications, NIfTI is a universal data exchange standard, and the raw data exported by hospital equipment is mostly in DICOM format. Although open source libraries such as pydicom, SimpleITK, and nibabel support format conversion, they typically require users to have Python programming skills and manually handle complex file structures, sequence recognition, and metadata parsing, posing significant obstacles for non-technical researchers. At present, there is a lack of a lightweight tool for DICOM to NIfTI conversion that is programming free, environment configuration free, and specifically designed for ordinary users. To this end, we have developed this software that encapsulates professional conversion logic into independent executable programs, providing a one click operation experience, significantly reducing the threshold for use, and helping to popularize the standardization process of medical imaging data. This software is a green installation free program. The operation steps are to decompress the compressed file to any directory (such as D: \ DICOM 2NII_Tool), ensuring that the directory structure is complete. Software features CT/MR image conversion operation process: Instructions for use: Double click run_ct_mr.bat, follow the prompts to enter: DICOM root directory: path containing multiple patient subfolders (such as D: \ data \ ct-mr), each subfolders should contain all DICOM slices of the same patient; Output directory: used to save the converted. nii.gz file (such as D: \ data \ nii_ct); The program automatically processes all subfolders and generates a 3D NIfTI file for each patient (such as Patient_001. nii. gz); After the conversion is completed, it will prompt 'Processing completed!'. Applicable objects: 3D tomographic images such as head CT, brain MRI, and abdominal enhanced scans. DR/US image conversion operation process: Double click run_rr_us.bat, follow the prompts to enter: DICOM folder: containing the path of. dcm files (such as D: \ data \ drybast), supporting single or multiple 2D images; Output directory: used to save results (such as D: \ data \ niiddr); After the conversion is completed, it will prompt 'Processing completed!'. Applicable objects: 2D planar images such as DRX light and ultrasound. Important warning: Do not put DR/US data into CT/MR converter! Otherwise, it may cause 2D images to be mistakenly stacked into 3D volumes, resulting in data distortion. Precautions The input directory should only contain valid DICOM files to avoid mixing non image files; Try to avoid Chinese characters or spaces in the path (it is recommended to use English paths, such as D: \ data \ input); If Chinese garbled characters appear in the command line window, please use Notepad to save the. bat file again in ANSI encoding; The converted. nii.gz file can be opened and verified using 3D Slicer, ITK-SNAP, or MRIkroGL; The software will automatically skip invalid or damaged DICOM files and record them in the log. 
description: Software Introduction In medical imaging research and AI applications, NIfTI is a universal data exchange standard, and the raw data exported by hospital equipment is mostly in DICOM format. Although open source libraries such as pydicom, SimpleITK, and nibabel support format conversion, they typically require users to have Python programming skills and manually handle complex file structures, sequence recognition, and metadata parsing, posing significant obstacles for non-technical researchers. At present, there is a lack of a lightweight tool for DICOM to NIfTI conversion that is programming free, environment configuration free, and specifically designed for ordinary users. To this end, we have developed this software that encapsulates professional conversion logic into independent executable programs, providing a one click operation experience, significantly reducing the threshold for use, and helping to popularize the standardization process of medical imaging data. This software is a green installation free program. The operation steps are to decompress the compressed file to any directory (such as D: \ DICOM 2NII_Tool), ensuring that the directory structure is complete. Software features CT/MR image conversion operation process: Instructions for use: Double click run_ct_mr.bat, follow the prompts to enter: DICOM root directory: path containing multiple patient subfolders (such as D: \ data \ ct-mr), each subfolders should contain all DICOM slices of the same patient; Output directory: used to save the converted. nii.gz file (such as D: \ data \ nii_ct); The program automatically processes all subfolders and generates a 3D NIfTI file for each patient (such as Patient_001. nii. gz); After the conversion is completed, it will prompt 'Processing completed!'. Applicable objects: 3D tomographic images such as head CT, brain MRI, and abdominal enhanced scans. DR/US image conversion operation process: Double click run_rr_us.bat, follow the prompts to enter: DICOM folder: containing the path of. dcm files (such as D: \ data \ drybast), supporting single or multiple 2D images; Output directory: used to save results (such as D: \ data \ niiddr); After the conversion is completed, it will prompt 'Processing completed!'. Applicable objects: 2D planar images such as DRX light and ultrasound. Important warning: Do not put DR/US data into CT/MR converter! Otherwise, it may cause 2D images to be mistakenly stacked into 3D volumes, resulting in data distortion. Precautions The input directory should only contain valid DICOM files to avoid mixing non image files; Try to avoid Chinese characters or spaces in the path (it is recommended to use English paths, such as D: \ data \ input); If Chinese garbled characters appear in the command line window, please use Notepad to save the. bat file again in ANSI encoding; The converted. nii.gz file can be opened and verified using 3D Slicer, ITK-SNAP, or MRIkroGL; The software will automatically skip invalid or damaged DICOM files and record them in the log.