[Ipmpack-users] help with IPMpack

[Eelke Jongejans]

Dear Elena,

the function stochGrowthRateSampleList only returns the mean of the 
per-time-step population growth rates in a stochastic simulation. If you 
want to know the distribution of these per-time-step population growth 
rates you could write your own version of this function and make sure 
that that distribution is stored as well. On the other hand if you want 
a CI for the resulting mean stochastic population growth rate, you code 
write code in which stochGrowthRateSampleList is called multiple times, 
and analyse the resulting distribution of mean stochastic population 
growth rates. If other people have other solutions, please share them!

Please also note the description of the stochGrowthRateSampleList 
function, that reads "Note that the function stoch.growth.rate in the 
package popbio does this more efficiently and with more useful output; 
but may fail for large bin numbers.".

I hope this helps,

Eelke



On 20-Jul-16 1:48 PM, Elena S. wrote:
>
> Hi,
>
> I try to calculate CI (confidence intervals) for my stochastic 
> population growth rate. I started with 4 IPM (four years of study), 
> then I run the following function:
>
> exp(stochGrowthRateSampleList(list(IPM9,IPM10,IPM11,IPM12),nRunIn = 
> 100, tMax = 5000))
>
> or the following ones, based on the IPMpack manual (Metcalf et al. 2014):
>
> exp(stochGrowthRateSampleList(nRunIn=100,tMax=5000,listIPMmatrix=list(IPM9,IPM10,IPM11,IPM12),
> listPmatrix=list(Pmatrix9,Pmatrix10,Pmatrix11,Pmatrix12),
> listFmatrix=list(Fmatrix9,Fmatrix10,Fmatrix11,Fmatrix12),
>                               seedList=NULL,
>                               densDep=FALSE))
>
> and I obtained a stochastic lambda of 1.25, but, at the moment, I 
> don't know how to calculate the confidence intervals.
>
> Anyone can help me?
>
> Thanks in advance,
>
> best regards,
>
> Elena
>
>
>
> _________________________________________________________
> Dott.ssa Elena Sulis, PhD
> Centro Conservazione Biodiversità (CCB)
> Sezione Botanica - Dipartimento di Scienze della Vita e dell'Ambiente 
> (DISVA)
> Università degli Studi di Cagliari
> V.le Sant'Ignazio da Laconi, 11-13
> 09123 Cagliari (ITALIA)
> Tel: +39-0706753509
> /E-mail:/ elenasulis at hotmail.it
> /Skype:/ elena.sulis
>
>
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