JBoss and Glassfish are basically full Java EE Application Server whereas Tomcat is only a Servlet container. The main difference between JBoss, Glassfish but also WebSphere, WebLogic and so on respect to Tomcat but also Jetty, was in the functionality that an full app server offer. When you had a full stack Java EE app server you can benefit of all the implementation of the vendor of your choice, and you can benefit of EJB, JTA, CDI(JAVA EE 6+), JPA, JSF, JSP/Servlet of course and so on. With Tomcat on the other hands you can benefit only of JSP/Servlet. However to day with advanced Framework such as Spring and Guice, many of the main advantage of using an a full stack application server can be mitigate, and with the assumption of a one of this framework manly with Spring Ecosystem, you can benefit of many sub project that in the my work experience let me to left the use of a full stack app server in favour of lightweight app server like tomcat.