Matt Cieslak

I have a working version here: https://github.com/PennBBL/qsiprep/blob/master/Dockerfile#L106 DSI Studio changes a lot so I would not recommend trying to build directly from their github

Maybe it would make sense to only automatically assign fieldmaps to images if the shim settings match?

Heudiconv/PyDicom both will write out a `"ShimSetting"` field with a series if values like ``` "ShimSetting": [ 1716, -3891, -210, 392, 14, -78, 161, 4 ], ``` In my experience,...

In our case there were two subjects that had the same ID but with different capitalization (sub-ndar, sub-NDAR) in the root bids directory. All the files within their directories matched...

Perfect timing @Lestropie! we are about to start on this too. Do you know if [this code](https://github.com/MRtrix3/mrtrix3/blob/master/matlab/read_mrtrix.m) still works?

I was planning in the next few weeks to translate that matlab code to python for a project that reads fixel data from mif files. I wasn't planning on handling...

Since command history isn't a standard part of streamlines data, I think it's reasonable to not fully support it. There definitely isn't anything comparable that will come out of trk...

did you run qsiprep with `--no-b0-harmonization`?

I think it should be the responsibility of the person who does BIDS curation on the data to make sure that the gradients match the images. QSIPrep doesn't run `dwigradcheck`...

Hi Marvin, What does your custom pipeline take as input? Preprocessed DWI data or msmt outputs? If it's expecting preprocessed DWI data you can use [this interface](https://github.com/PennLINC/qsiprep/blob/c47af4cdf4c8e686961ba23351c7774746faa4ae/qsiprep/interfaces/bids.py#L80) instead of a...