wb_command -cifti-merge takes the output filename first, then you repeat
"-cifti <input>" for each input file (which is why in the help the -cifti
option is marked as repeatable), in the order you want them concatenated.
The help information for -cifti-merge includes this example and explanation:
Example: wb_command -cifti-merge out.dtseries.nii -cifti
first.dtseries.nii -column 1 -cifti second.dtseries.nii
This example would take the first column from first.dtseries.nii,
followed by all columns from second.dtseries.nii, and write these columns
to out.dtseries.nii.
See:
http://humanconnectome.org/software/workbench-command.php?function=-cifti-merge
Tim
On Fri, Sep 25, 2015 at 5:12 PM, Stevens, Michael <
michael.stev...@hhchealth.org> wrote:
> Hi folks,
>
>
>
> Today, I tried using PALM to load CIFTI files directly in order to
> estimate some simple 1 and 2 sample t tests on some HCP-processed data I’ve
> got from one of my projects. But I quickly ran into a problem. Anderson
> Winkler and I just talked about it via email. He pointed out that I was
> trying to load 45 dense-data activation map images into PALM in a way that
> the program interpreted as needing to have only 45 datapoints along the
> first dimension. In other words, PALM doesn’t like the CIFTI output from
> HCP’s fMRI modelling script when it’s loaded directly using the -i input
> specification.
>
>
>
> Anderson suggested things might work more easily if I merged these CIFTI
> files into a 4D file. But he also suggested I pay close attention to how
> the data was oriented so that PALM interprets things right. I know I could
> instead follow previous posts about splitting the data up into NIFTI volume
> vs. surface data, running stats, and ultimately recombining, but I was
> hoping that PALM really could do everything in one step if the CIFTI stats
> file data was prepped right, as that’d make it a bit easier to try out all
> the cool statistical options Anderson built into PALM across the various
> HCP datasets I’ve got at hand.
>
>
>
> Can anyone whose dealt with this or a similar problem before tell me
> exactly how to invoke the wb_command –cifti-merge command to collapse into
> 4D and to orient these CIFTI data properly for PALM group-level analyses?
>
>
>
> Thanks,
> Mike
>
>
>
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