Question about heudiconv

Software Support
1

Hello,

I’m collecting fMRI data for my experiments.Typically, the collected data is an integer multiple of TR(e.g. 600s for TR=2000ms, so there are 300 TRs or volumes). Due to the peculiarities of the experiment, I set a scan time long enough and then manually stopped the scanner when the participant had completed the task. This results in the acquired data stopping at a slice within a TR or volume. In other words, the last TR or volume may be incomplete.

Can heudiconv directly handle the data in this case？Or do I need to do something manually before？

Thanks
Yang

2

it will likely be dcm2niix which would be unhappy some times but not always. See dcm2niix node does not error out whenever dcm2niix exits with 1 · Issue #3592 · nipy/nipype · GitHub . So overall

  • I would have advised to avoid doing so
  • depending on your scanner, if dcm2niix can convert incomplete sequences where it is just not all dynamics, I would advise to write a little script to first cleanup your dicom folders and remove/move those incomplete volumes away so dcm2niix could convert without failing