NAME

       dcm2niibatch - DICOM to NifTI batch converter

SYNOPSIS

       dcm2niixbatch <configuration-file>

DESCRIPTION

       Most  medical  imaging  devices  save images in some variation of the popular DICOM format. However, most
       scientific tools expect medical images to be stored in the comparatively simpler NIfTI  format.  dcm2niix
       is designed to perform such conversion from DICOM to NIfTI with a simple command-line interface.

       dcm2niibatch  acts  as a wrapper around dcm2niix and allows the processing of multiple DICOM sequences by
       specifying the list of files and settings in a yaml text file.  The makes processing a dataset  of  DICOM
       scans simpler and more easily repeatable.

       In  addition,  yaml  files  are designed to be both human and machine readable and a script can easily be
       written in many programming languages to automatically create a yaml file based  on  an  existing  folder
       structure.

       Please  be  advised  that  dcm2niix  and  dcm2niibatch have been developed for research purposes only and
       should not be considered a clinical tool.

CONFIGURATION FILE FORMAT

       Perform a batch conversion of multiple dicoms using dcm2niibatch, which is run by passing a configuration
       file e.g dcm2niibatch batch_config.yml

       The configuration file should be in yaml format as shown in example batch_config.yaml

          Options:
            isGz:             false
            isFlipY:          false
            isVerbose:        false
            isCreateBIDS:     false
            isOnlySingleFile: false
          Files:
              -
                in_dir:           /path/to/first/folder
                out_dir:          /path/to/output/folder
                filename:         dcemri
              -
                in_dir:           /path/to/second/folder
                out_dir:          /path/to/output/folder
                filename:         fa3

       You can add as many files as you want to convert as long as this structure stays consistent.  Note that a
       dash must separate each file.

       in_dir     Path to the dicom files

       out_dir    Path to save the nifti file

       filename   File name of nifti file to save

SEE ALSO

       dcm2niix(1)

LICENSING

       Copying and distribution of this file, with or without modification, are permitted in any medium  without
       royalty  provided the copyright notice and this notice are preserved. This file is offered as-is, without
       any warranty.

AUTHOR

       This manual was developed and is maintained by Benjamin Irving <mail@birving.com>

COPYRIGHT

       2023 The dcm2niix contributors

1.0                                               Sep 02, 2023                                   DCM2NIIBATCH(1)