I have a whole-body MRI scans with the header below:
{
dim : [ 3 320 260 96 1 0 0 0]
pixdim : [1. 1.40625 1.40625 3. 0.00436 0. 0. 0. ]
qoffset_x : -216.09375
qoffset_y : -178.90625
qoffset_z : -664.5
srow_x : [ 1.40625 0. 0. -216.09375]
srow_y : [ 0. 1.40625 0. -178.90625]
srow_z : [ 0. 0. 3. -664.5]
}
Binary label-maps for different organs in the whole-body MRI scan. I need to merge them together as a single label-map nifty file.
One of the label-map has a different shape and q_offset values in its header that make merging difficult. The header of that label-map nifty file below:
{
dim : [ 3 55 49 28 1 1 1 1]
pixdim : [1. 1.40625 1.40625 3. 1. 1. 1. 1. ]
qoffset_x : 119.41935
qoffset_y : 106.36636
qoffset_z : -503.68216
srow_x : [ -1.40625 0. 0. 119.41935]
srow_y : [ 0. -1.40625 0. 106.36636]
srow_z : [ 0. 0. 3. -503.68216]
}
When I overlay the individual label-map on top of the whole-body MRI scan using 3dSlicer, it overlayed perfectly for the concerned organ, but as the shape is different, once after merging all label-maps, it does not work [ Yellow label-map for Spleen organ].
This is how it looks in 3dSlicer [ Look for Yellow region.].
But the expected area of visualization is in the bottom right of below pic. (Spleen Organ)
As the voxel resolution is the same, I think this has something to do with different q_offset values.
Kindly, let me know if anyone has a solution.