The origin of the knee in cosmic ray spectrum remains to be an unsolved fundamental problem. There are various kinds of models which predict different break positions and the compositions of the knee. In this work, we suggest to use diffuse $gamma$-rays and neutrinos as probes to test these models. Based on several typical types of the composition models, the diffuse $gamma$-ray and neutrino spectra are calculated, which show distinctive cutoff behaviours at energies from tens of TeV to multi-PeV. The expected flux will be observable by the newly upgraded Tibet-AS$gamma$+MD (muon detector) experiment as well as more sensitive future projects, such as LHAASO and HiSCORE. By comparing the neutrino spectrum with the recent observations by IceCube experiment, we find that the diffuse neutrinos from interactions between the cosmic rays and the interstellar medium may not be responsible to the majority of the IceCube events. Future measurements of the neutrinos may be able to identify the Galactic diffuse component and further shed light on the problem of the knee of cosmic rays.
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