Hi everybody
I'm working on 3d stacks of images of rat brains from confocal microscopy. I have to register them to an Allen standard template, so I'm testing AFNI on this.
I'm getting quite good results with 3dQwarp. Nonetheless, I need to further improve these results. I have a set of markers (or tagsets, as you call them in 3dTagalign) matching points in the atlas with points in the confocal images. Is there anyway I can integrate this information in a pipeline for nonlinear image coregistration?

PS: is plug_tag still available? I'd need a tool to insert custom markers in the header, setting attributes such as TAGSET_NUM, TAGSET_FLOATS. TAGSET_LABELS. I can not find the plug_tag tool tho.
I have been trying something like
x0=5.72
y0=2.30
z0=6.76
x1=5.70
y1=3.47
z1=6.76
3drefit -atrstring TAGSET_FLOATS "$x0 $y0 $z0 0 0 $x1 $y1 $z1 1 0" $dataset_name
but then the output of
3dAttribute TAGSET_FLOATS $dataset_name
is empty

Thanks



Edited 2 time(s). Last edit at 11/23/2021 08:54AM by SC5.