I am very new to fMRI and I would like some help in a problem I am currently facing. I run a fMRI event- related model consisting of 4 runs. The appropriate number of images I obtain from the scanner (adapted to the duration of my experiment) are 10.188 images or potentials per run divided in 283 volumes in order to have 36 slices per volume.In some subjects examined and in some runs I obtained less images or potentials e,g 9551 DICOM images,266 volumes.(by fault during the experiment) .When I made the conversion from DICOM to NIFTII via dcmniigui.exe the runs which had the less DICOM images could not be converted.This makes sense because the number of images in series (9551) are not divisible by the number of volumes(266).In order to solve this i divised the number of images acquired with the number of slices(36) to find the proper number of volumes (9551/36=265,3) and then multiplied 265 vol x 36=9540 images.Then I substracted 9540 from th 9551 and the 11 images found I substracted them from the end.After I made the conversion to NIFTII without a problem.But when I ran afterwards the Art Repair program in these runs which I had modified I found an abnormal number of bad slices.Note, that all the other runs in the same subject which had not been modified were without bad slices at all.I suppose that its due to the modification.I am wondering if the problem is in Art Repair program which does not read the volumes having less images.Does anybody have any idea??Thank you in advance!
MD neurology resident