is needed to calculate the damage noise levels. To calculate these correlations we need to know the condition probability $P( f_n(q,t') | f_m(q,t) )$, which gives the probability of an ion being found in ionization state $n$ at time $t'$ given that it was in ionization state $m$ at time $t$. We have developed a way of calculating these conditional probabilities, and hence the damage noise. First the damage simulation is carried out generating the populations of ion states at all time points and the transition rates between ion states are stored as a function of time. Starting with the mean ion population of state $m$ at time $t$, the stored transition rates can be used to generate the fraction of these atoms in ionization state $n$ at all later time points $t' > t$, from which the conditional probabilities can be readily inferred.

We use a damage model based on a rate-equations model[@HauRiege2004], which is extended to include ion diffusion using the methods from a non-local thermal equilibrium plasma model[@Scott2001; @Caleman2011]. The details of the model are given in Appendix \[app:model\]. As we closely follow the methods of Refs. [@HauRiege2004; @Caleman2011], we expect the results and the validity our 