lukassnoek/bidsify repository overview

bidsify: converts your (raw) MRI data to the BIDS-format

This package offers a tool to convert your raw (f)MRI data to the "Brain Imaging Data Structuce" (BIDS) format. Using only a simple (json or yaml) config-file, it renames, reformats, and restructures your files such that it fits the BIDS naming scheme and conforms to file-formats specified by BIDS. This tool has been used to successfully convert datasets for preprocessing using fmriprep and quality control using the mriqc package. Currently, bidsify is "deployed" at the Spinoza Centre for Neuroimaging (location REC) to automatically convert data to BIDS after scanning (check the nitools package to see how we deployed BIDS).

This package was originally developed to handle MRI-data from Philips scanners which are traditionally exported in the "PAR/REC" format. Currently, bidsify also supports Philips (enhanced) DICOM (DICOM/DICOMDIR format) and Siemens DICOM (.dcm extension), but this is not fully tested yet!

bidsify is still very much in development, so there are probably still some bugs for data that differs from our standard format (at the Spinoza Centre in Amsterdam) and the API might change in the future. If you encounter any issues, please submit an issue or (better yet), submit a pull-request with your proposed solution!