Do you need to plot inside the loop? The best thing you can do is wait on plotting until after the loop. For example,
hold on
for x = 1:1000
plot(x,sind(x),'bo')
end
will take much longer than
x = 1:1000;
y = NaN(size(x));
for k = 1:length(x);
y(k) = sind(x(k));
end
plot(x,y,'bo')
If you can remove the loop entirely, that will be fastest:
x = 1:1000;
y = sind(x);
plot(x,y,'bo')
Experiment with the above. Put tic before a section and toc after to see how long it takes your computer to run a given section.
