What size are vcp and vcn before you start the loop? If you are doing something like this:
vcp = ;
vcn = ;
for i = 1:10
vcp(i, :) = vcpa(:);
vcn(i, :) = vcna(:);
then what is happenening is vcp and vcn are growing as the loop runs. They are initially allocated a very small amount of memory because they are empty arrays. As they grow in size, they need larger and larger contiguous memory blocks. This requires MATLAB to reallocate space for them, and copy over their existing data into the new memory block regularly throughout the loop.
If this is what is happening, I highly recommend preallocation of the arrays. You should be seeing a code analyzer warning about the array changing size every loop, which should warn you about this kind of thing in the future.
Also, it's not clear from your code snippet, but if you are not changing the value of vcpa and vcna within the loop, you can more easily create the arrays with something like:
vcp = repmat(vcpa(:), 1, nColumns);
vcn = repmat(vcna(:), 1, nColumns);