Methods, systems, and apparatus, including computer programs encoded on computer storage media, for generated aggregated dependencies between software elements in a code base. One of the methods includes receiving a request to generate implicit dependencies introduced by remote procedure calls in a project. A registration of a remote procedure call is identified, wherein the registration of the remote procedure call specifies a target function and a name for the remote procedure call. An invocation of the remote procedure call using the name for the remote procedure call is identified, wherein the invocation occurs in a source software element of the project. A definition of the target function of the remote procedure call is identified, wherein the target function is defined in a target software element of the project. A new dependency is generated, the new dependency being a dependency from the source software element to the target software element.