The line does not work because the left part just returns a logical.
It is similar to writing
...which makes no sense but returns the same error message
For this type of basic operation it is better to make use of logical indexing. For example, if you want to replace all your NaNs with zeros, you can write the following
mask = isnan(auPoints);
auPoints(mask) = 0;
The first line returns a logical array (1's and 0's) with the same size as the original array. This array is then used to index the original array. Faster and easier than loops.
More about logical indexing and indexing in general here.