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| Several conversion tools exist (see a full list [[https://bids.neuroimaging.io/benefits#converters|here]]. We recommend using a `Python`-based converter [[https://heudiconv.readthedocs.io/en/latest/index.html|HeuDiConv]]. | Several conversion tools exist (see a full list [[https://bids.neuroimaging.io/benefits#converters|here]]). We recommend using a `Python`-based converter [[https://heudiconv.readthedocs.io/en/latest/index.html|HeuDiConv]]. |
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| `HeuDiConv` is available on our computing system as an Apptainer image. | `HeuDiConv` is available on our computing system as an Apptainer image `/imaging/local/software/singularity_images/heudiconv/heudiconv_latest.sif` Converting DICOM data to BIDS using `HeuDiConv` involves 3 main steps: 1. Knowing what type of scans there are in your data 2. Creating a heuristics file specifying how to translate the scans into BIDS format 3. Converting the data |
Table of contents:
Converting MRI DICOM data to BIDS format
The raw data from the scanner are in DICOM format. They are stored at /mridata/cbu/[your project code]. To start working with the data you first need to convert them to NIfTI format and organise them according to the BIDS standard.
Several conversion tools exist (see a full list here). We recommend using a Python-based converter HeuDiConv.
HeuDiConv is available on our computing system as an Apptainer image /imaging/local/software/singularity_images/heudiconv/heudiconv_latest.sif
Converting DICOM data to BIDS using HeuDiConv involves 3 main steps: 1. Knowing what type of scans there are in your data 2. Creating a heuristics file specifying how to translate the scans into BIDS format 3. Converting the data
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