Single volume EPI data

bids
#1

Dear BIDS experts,

I am very new to BIDS and I need your help!
I am trying to adapt the BIDS for my fMRI data. Since it was more of a technical project I have a number of EPI acquisitions with different volumes and I would like to ask a question.

I have single volume EPIs with 3 different sequences, should I put this under func/ and name them as resting state data?

Thanks in advance!

Kind Regards

#2

Could you elaborate on what kind of data you have? I don’t really understand what you’re proposing.

#3

Hi!

Thanks a lot for the reply.
Basically we acquired only one volume with our different EPI sequences. Later we acquired long resting states run with the same sequences.
So can I name this 1 volume images as if they are rest and just change the acquisition name?

#4

While you could call it “rest”, that seems a bit misleading. What I might recommend is something like the following:

sub-01/
  func/
    sub-01_task-onevol_acq-seq1_bold.nii.gz
    sub-01_task-onevol_acq-seq2_bold.nii.gz
    sub-01_task-onevol_acq-seq3_bold.nii.gz
    sub-01_task-rest_acq-seq1_bold.nii.gz
    sub-01_task-rest_acq-seq2_bold.nii.gz
    sub-01_task-rest_acq-seq3_bold.nii.gz

You could then describe your EPI sequence parameters in acq-*_bold.json metadata files, and describe the scan type with task-*_bold.json files, such as:

task-onevol_bold.json:

{
  "TaskName": "Single volume acquisition",
  "TaskDescription": "Single volume acquired for diagnostic purposes"
}

task-rest_bold.json:

{
  "TaskName": "Resting state"
}

acq-seq1_bold.json:

{
  "RepetitionTime": 2.5,
  "PhaseEncodingDirection": "j-",
  "SliceEncodingDirection": "k"
}

acq-seq2_bold.json:

{
  "RepetitionTime": 2.0,
  "PhaseEncodingDirection": "i",
  "SliceEncodingDirection": "k"
}

Does this suit your needs?

#5

Yes, it does, thank you very much!