I've found an alternative for using the cscvn function.
Using a semi-arclength parametrisation, I can create the spline from the arrays x and y as follows:
diffx = diff(x);
diffy = diff(y);
t = zeros(1,length(x)-1);
for n = 1:length(x)-1
t(n+1) = t(n) + sqrt(diffx(n).^2+diffy(n).^2);
end
tj = linspace(t(1),t(end),300);
xj = interp1(t,x,tj,'spline');
yj = interp1(t,y,tj,'spline');
plot(x,y,'b.',xj,yj,'r-')
This creates pretty decent outlines.
What this does is use the fact that a curve in the plane can be approximated by connecting a finite number of points on the curve using line segments to create a polygonal path. Using this we can parametrize the points (x,y) in terms of t. As we only have a few points to create t from, we create more by adding linearly spaced points in between. Using the function interp1, we then find the intermediate values of x and y that correspond to these linearly spaced t, ti.