Fmriprep advices for multiband

1

Hi guys,

The data has been collected for a very well known task and I am very surprised that at the 2nd level analysis I do not see anything. I would like to know by any chance if someone has some advice about the best way to preprocess multiband data.

Am I removing too much signal during the preprocessing ? Am I not using the good preprocessing steps ?

My data is multiband (Simultaneous Multi-Slice) with :
TR = 400ms
Number of frames = 876
Number of slices in one volume := 48

With fmriprep I have used the following command line :
singularity run /share/PI/russpold/singularity_images/poldracklab_fmriprep_1.0.0-rc2-2017-08-12-d5eb3198f90a.img /scratch/PI/aetkin/redwan/framing/sourcedata/ /scratch/PI/aetkin/redwan/preprocessed/ participant --participant_label 01 --work-dir $LOCAL_SCRATCH --nthreads 16 --omp-nthreads 16 --no-freesurfer --write-graph

I have not used any slice time correction, according to this paper (https://www.ncbi.nlm.nih.gov/pubmed/23668970)

Then I have used 13 confounders at the 1st level analysis (6 moition parameters, FD, aComport)

Thank you very much,
Redwan

2

We have successfully analyzed multiband data for various tasks using FMRIPREP with similar settings and using similar confound regressors on first level. The only exception is that we used --ignore slicetiming option.

What task is it? Are the HTML reports looking ok?

3

It may not be your whole problem, bu,t if you’re using aCompCor in 1.0.0-rc2, you should also include the “Cosine” confounds. CompCor has been run on high-pass-filtered BOLD series since 0.5.3.

4

@Chris - we would like to show the framing effect using ‘The financial decision-making task’ from De Martino. The HTML files look ok.

@Effigies - I can try to add “Cosine” regressor at the first level analysis but I even tried the first level analysis without aCompCor and FD. (I just tried with the 6 motions parameters) and the results were similar. The first level analysis looks ok (i see activation for all 20 subjects) but nothing at the second level.