https://github.com/dangom/dac2bids

Create a BIDS structure for a DICOM folder.
https://github.com/dangom/dac2bids

bids-format neuroimaging organize-files

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Create a BIDS structure for a DICOM folder.

• Host: GitHub
• URL: https://github.com/dangom/dac2bids
• Owner: dangom
• Created: 2016-11-30T14:47:01.000Z (almost 8 years ago)
• Default Branch: master
• Last Pushed: 2017-11-06T20:41:46.000Z (about 7 years ago)
• Last Synced: 2024-08-03T13:14:01.279Z (3 months ago)
• Topics: bids-format, neuroimaging, organize-files
• Language: Python
• Size: 19.5 KB
• Stars: 10
• Watchers: 4
• Forks: 2
• Open Issues: 1
• Metadata Files:
  • Readme: README.org

Awesome Lists containing this project

• awesome-bids - dac2bids

README

        
#+TITLE: DAC2BIDS

* Introduction

A set of utilities to automatize the conversion of DICOM into NIfTI files and to

organize the output conforming to the [[http://bids.neuroimaging.io/][BIDS]] format. DAC2BIDS tries to be as

compatible as possible with the Donders Institute DAC (Data Acquisition

Collection).

The recommended workflow is:

1. Generate a bids folder structure for your project. Example:

#+BEGIN_SRC bash :eval never

mkdir -p experiment-datasets/sub-{01,02}/ses-{01-02}/{func,anat,fmap}

#+END_SRC

2. Generate yaml files with dac2bids.py. These yaml files are used as input to:

3. Convert DICOMs to NIfTIs with dcm2niibatch.

DAC2BIDS covers step number 2 of the workflow above. The generated yaml

configuration files serve a double purpose as they document what DICOM folders

are being converted to what NIfTI files.

* Dependencies

  Requires Python 2.7 and the following modules: =yaml= and =dicom=.

* Installation and Usage

Use =pip= to install the required modules and simply call dac2bids from the command line.

See dac2bids --help for the calling syntax.

* Limitations

Currently only supports DICOMs from latest Siemens scanners (VD13+).