I have:
2 groups,
0 individual covariates,
3 states (including the hidden state "dead"),
4 events (0=not seen, 1=no antibodies, 2=antibodies, 3=unknown)
1 age class
9 occasions
Given I have unequal time intervals I set the age class (sensu time since first capture) =1.
At the 5th occasion no individuals were blood sampled so I have just captures of "unknown" individuals (event 3) and as a consequence, pevent1=0 and pevent2=0.
The gemaco code I have set for event step 1 (capture) is f.t (*below a question about this), i.e. capture probability depends on the interaction between individual state at the current occasion and time. I have tried to set these p=0 in the IVFV but I must been doing something wrong because the results are nonsensical (all the parameters' estimates are=0.5 that is the initial constant value set for every parameter, except those I have fixed to a different value, in the IVFV).
This is what I have done:
The beta#1 is fixed to one given the first capture of each individuals has p=1 as explained in the manual (page 58). I set the beta#9 and beta#10 to zero because I understood that from 1 to 2 for T=5 and from 2 to 3 for T=5 index the parameters I am looking for, i.e. the p one individual in state 1 (no antibodies) is seen at occasion 5 and the p one individual in state 2 (antibodies) is seen at occasion 5.
But I must be missing the point....
* Should I put brackets also when this is the only sentence for a specific step? I ask this because I have read a post where Rémi Choquet suggested to put brackets around an entire sentence in order to avoid problems of priority in the sentence:
Choquet wrote:ad a(33:36).g(1)&a(22:25).g(2)&a(9:12).g(3)&a(1:4).g(4)
It should be replaced by:
ad [a(33:36).g(1)&a(22:36).g(2)&a(9:36).g(3)&a(1:36).g(4)]
because individuals of g(4) remains adults for all ages (time elapsed since first capture).
I added also bracket to avoid problems of priority in the sentence, do the same for
all shortcuts.
Thanks for any help
Simone