Create spm mat file

Thank you. Hi Andy! I really need your help. Once I get the SPM. I guess in theory I can do it at a ROI level don't know how and I know I can do it for a single voxel by plotting the 'fitted response' and selecting the contrast I choose and this would generate a 'y' variable which corresponds to the fitting response.

How do I get this fitted response for all voxels? Also, if a voxel is active in different contrasts, why is the fitting function different? Thank you in advance for your help! First, concatenate all of your.

Each row will be a timecourse from each voxel, and the number of columns will be the number of volumes in your dataset. You can import this into Excel for further manipulation or statistics.

Check the help of 3dmaskdump to learn more about the options -noijk and -xyz. How it calculates the fitted timecourse in the GUI, I do not know. Thank you for your help! The problem is that I don't want the initial fMRI time series which are encoded in the fMRI images, I would like to have the fitted responses after preprocessing and after determining the contrast and pvalue which as you said are not encoded in any separate file so I wouldn't know which.

Estimate the model, and load the SPM. Label the contrast Incongruent , and assign it a contrast weight of 1. Use the same options as you did for the Inc-Con contrast. As an exercise, create a second-level result for the Congruent contrasts. If you examine the Incongruent and Congruent results at the same threshold, do you see what you would expect given the Inc-Con contrast that you viewed above?

How can you determine what the cluster threshold needs to be in order to determine whether a cluster is significant? The table underneath the glass brain shows a list of clusters that pass the thresholds you specified, and the column pFWE-corr displays the p-value associated with that cluster "cluster-level" or individual voxel "peak-level".

In other words, any clusters that have a corresponding pFWE-corr value of 0. Write down the number in that field, and then rerun your Results using that threshold. The cluster that remain should all be statistically significant. When you have finished creating all of the second-level analyses, try the remaining exercises to test your understanding of what you have just learned.

For a video overview of group-level analysis, click here. Skip to content. Star Dhiraj Jagadale on 20 Mar I want to convert data from SPM tool to. SPM stores a file in. Please tell me way to use both of these files and convert to CSV. Also, how I can retrieve the 4 trials in my data. Accepted Answer. Jan on 30 Mar Vote 8. Thank you for your answer.

I really appreciate this. It definitely works, however, my problem was with the following line of code. This is what I meant that used to work before:. Here is a working example:. Error using dlmwrite.

Too many output arguments. Did you perhaps create the. Julia Wang on 23 Mar I could load the. Undefined function 'real' for input arguments of type 'struct'. Error in csvwrite line 43 dlmwrite filename, m, ',', r, c ;.

Do you have any suggestion? Image Analyst on 24 Mar What does this show in the command window:. NOTE: All of these steps can be batch processed. You can get around this and be able to do them separately all coregs together and all normalizations together if you copy the c1 image for that particular subject in to the task folder for each task separately and then use that particular c1 image to do the normalization step.

At each step, make sure that the files look as they are supposed to look. Since for most cases, you will no longer set the origin, look at the T2 scan especially if your scans are not being read by a neuroradiologist to make sure that there are no gross abnormalities in the scan atrophy, tumors, large ventricles.

There are a few ways of doing this. Alternately, you can use a program such as xjView, which can be downloaded free from.