Research Objects have the potential to significantly enhance the reproducibility of scientific research. One important way Research Objects can do this is by encapsulating the means for re-executing the computational components of studies, thus supporting the new form of reproducibility enabled by digital computing-exact repeatability. However, Research Objects also can make scientific research more reproducible by supporting transparency, a component of reproducibility orthogonal to re-executability. We describe here our vision for making Research Objects more transparent by providing means for disambiguating claims about reproducibility generally, and computational repeatability specifically. We show how support for science-oriented queries can enable researchers to assess the reproducibility of Research Objects and the individual methods and results they encapsulate.