Hi Christina,
An alternative to slicer is to use FSLeyes for off-scren rendering:
https://users.fmrib.ox.ac.uk/~paulmc/fsleyes/userdoc/latest/command_line.html#off-screen-rendering
Cheers,
Paul
On 18/03/2019, Christina Fales <[log in to unmask]> wrote:
> Hi FSL gurus:
>
> Does the slicer routine allow you to scale the size of the output display?
>
> I'm using it to create QA images for checking registration that present the
> EPI scan, T1 scan and MNI atlas. Running slicer (with the "-a" option) for
> the EPI scan and the MNI atlas produces ".png" files which, when
> concatenated with pngappend, show the two brains lined up nicely in the same
> size. However when I run the corresponding T1 in the same way, the size of
> the brain in the .png file is twice as large. Concatenating all three means
> that the T1 part of the picture is much larger than the other two scans.
> (The T1 file does have a much higher reesolution than the other two.)
>
> How can I use slicer (or any other tool) to create png files that show the
> three brains in the same scale? (I want to show a single sagittal, coronal,
> and axial slice for each scan, in three rows, so that corresponding
> structures line up.)
>
> Thanks very much,
> Christina Fales
>
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