It depends upon which side is "unknown"
If it's the hypoteneuse, then we have
Hypoteneuse = √(Leg12 + Leg22)
If it's a leg, then we have
Missing Leg = √(Hypoteneuse2 - Known Leg 2)
It would certainly help if you gave an example along with your question, but no worries:)
There are quite a few ways to solve for a side in a right triangle, and one of the most common is the Pythagorean Theorem:
$${{\mathtt{a}}}^{{\mathtt{2}}}{\mathtt{\,\small\textbf+\,}}{{\mathtt{b}}}^{{\mathtt{2}}} = {{\mathtt{c}}}^{{\mathtt{2}}}$$
a and b are legs of the triangle (the two shorter sides) and c is the hypotenuse (longer, diagonal side)
If you have the measure of an angle, you can use trigonometry to solve for an unknown side (using sine, cosine, tangent)
It really depends on what info you have about the triangle. . .