In this work, we begin by examining the possibility of using collisions between large deformed nuclei, such as uranium, at the Relativistic Heavy Ion Collider (RHIC) facility at Brookhaven National Laboratory. We present calculations that highlight the advantages of such an endeavor over the current gold-gold (Au+Au) program. These calculations are examined both within a Glauber model framework and using a color glass condensate (CGC) type picture. We discuss event selection techniques and analyze these procedures using a Monte Carlo simulation. We also explore the use of two-particle interferometry to probe the final size and shape of the particle emitting source. We develop a computer program capable of computing the azimuthally dependent spatial correlation tensor and Hanbury Brown-Twiss (HBT) radii. The accuracy of this program is tested by comparing its output with a number of analytic calculations. We then employ symmetries of the source function to greatly reduce the computational effort necessary to evaluate the Fourier expansions of the correlation tensor and the HBT radii. We close by examining the effects of final state interactions on the measured HBT radii. We derive a nonrelativistic expression for the two-particle probability and examine this expression in various limits, assuming a time-independent interaction with the medium. We explore the effects of weak rescattering on the measured radii by performing a perturbative calculation in the case with only a time-independent medium interaction, obtaining a surprisingly straightforward result.