Dear Donald and SPM users

Hi

Thank you so much for your time.

I tried reading the data manual to become sure of the executed pre processing steps.However it's kind of puzzling.

While examining other data folders I found a text file:

Structural Pipeline v2.0

Functional Pipeline v2.0

Execution 1

Do these pipelines have any certain steps?What do they mean?

Many thanks,

Mahsa

On Wednesday, August 6, 2014 7:15 PM, "MCLAREN, Donald" <[log in to unmask]> wrote:

Mahsa,

In order to publish your data, you need to know all of the processing steps - from dicom to smoothed, normalized, warped.

Normally, programs will append some indicator of the processing steps in their file names. In AFNI, the commands used to create each file are also stored. 

You might be able to decipher that the images were: slice-time corrected, realigned, normalized, or smoothed based on the file names or header. However, you might not get all the information that need just from the filenames and header. Additionally, you might be assuming what some of the filenames mean. There are other things that might be hidden, for example, you might have lost some TRs at the beginning of the run and you'd need to adjust the stimulus timing. This is something that would not be apparent from looking at the file names or headers.

I would contact the person who gave you the data and get them to list all the pre-processing steps. This will not only be useful and necessary for any publication, but you will also be able to check that all the processing was done that way you want it done.

-Donald

On Wed, Aug 6, 2014 at 6:43 AM, Mahsa Alizade shalchy <[log in to unmask]> wrote:

Dear SPM users

Hi

I have a set of fmri images that are previously preprocessed.

Due to several errors (I have encountered while performing a GLM analysis) I do doubt whether my images were warped into MNI space or not.

Could I get any information about previously performed preprocessing steps by visually observing my data?

PS:preprocessed image information is:

Dimension:X=91,Y=109,Z=91.

Size:X=2,Y=2,Z=2

Origin voxel:X=46,Y=64,Z=37

Thank you in advance for your time.

Best Regards,

Mahsa