Abstract : We propose a simple and model-independent procedure to account for the impact of the nuclear modification of the gluon density as encoded in nuclear collinear PDF sets on two-to-two partonic hard processes in proton-nucleus collisions. This applies to a good approximation to quarkonium, D and B meson production, generically referred to H. Our procedure consists in parametrising the square of the parton scattering amplitude, A_{gg -> H X} and constraining it from the proton-proton data. Doing so, we have been able to compute the corresponding nuclear modification factors for J/psi, Upsilon and D^0 as a function of y and P_T at sqrt(s_NN)=5 and 8 TeV in the kinematics of the various LHC experiments in a model independent way. It is of course justified since the most important ingredient in such evaluations is the probability of each kinematical configuration. Our computations for D mesons can also be extended to B meson production. To further illustrate the potentiality of the tool, we provide --for the first time-- predictions for the nuclear modification factor for eta_c production in pPb collisions at the LHC.