Eye infections can occur following ocular trauma, surgery, contact lens wear, intraocular injections, or endogenously. These infections result in disease states which include direct damage to the eye from the infectious agent as well as the host response (which may cause immune-related bystander damage). The primary diseases that result are conjunctivitis, keratitis, uveitis, and endophthalmitis; the causative agents consist of bacteria, viruses, fungi, and parasites. Anti-infective agents and, in some cases steroids, are the primary currently employed treatments for eye infections; however, these treatments are not always effective in either eradicating the infection and/or preventing permanent ocular damage. The research aimed at understanding the pathogenesis of ocular infectious diseases and identifying new means to effectively treat these diseases involves both animal models as well as in vitro methods. This method collection contains a selection of in vivo and in vitro methods of studying ocular infectious diseases. The objectives of this collection are: (1) to highlight the importance of researching these diseases; (2) to share the step-by-step models that are being used; and (3) to encourage new cross-disciplinary idea formulation (for example, bacteriology/virology or cornea/vitreous humor). A basic scientific understanding, as well as novel therapeutic studies, are intended for inclusion.