Dear BIDS team,
First of all, thank you for this great data structure, I have been using this guideline to handle all the data, and have been developed several tools that utilizing BIDS and it is became amazingly efficient.
I'm opening this issue because I hope to ask adding my BIDS compatible converter for preclinical MRI (Bruker raw data). If this is not the place to request this, please let me know, I will close this issue as soon as possible.
Briefly, my code is designed to help to convert multiple sets of raw data for the Bruker's preclinical scanner by creating an excel file and JSON file as a template to guide filename as well as metadata parsing with custom syntax. So I think this will be a useful tool for the animal MR imaging researcher who wants to adapt BIDS for their research.
Here is my Github link : BrkRaw
And below content is what I posted at README.md regarding the BIDS.
Automatic BIDS organizer with template files
![brkraw bids](https://github.com/dvm-shlee/bruker/blob/master/imgs/brkraw_bids_conv.png?raw=true)
The usage of the command-line tool 'brkraw' for BIDS data organization.
- Upgraded feature to reduce the burden on renaming according to BIDS standard.
- Create a BIDS file table with excel format to use as a template for updating metadata that required to use for file naming.
- This command will also generate the BIDS_META_REF.json which allows you to set custom syntax to parse the metadata from the raw data. The default reference of the current version is based on BIDS 1.2.2.
- To learn more detail, please check our example
Jupyter Notebooks.
$ brkraw bids_list <parent folder> <filname>.xlsx
- Build BIDS dataset according to the excel file generated with 'bids_list' command above.
$ brkraw bids_converter <parent folder> <BIDS table file.xlsx>
$ brkraw bids_converter <parent folder> <BIDS table file.xlsx> -r <BIDS meta reference file.json>
Again please let me know if I post this at the wrong place.
Thank you! and I hope you are all staying safe and healthy from COVID-19!