[Basta-users] Monthly capture history; 0 birth or death information

[Ken Honeycutt]

Fernando,

Thanks for your response and for sending along the latest BaSTA version,
especially the bit about using "recaptTrans." I tried that and it worked
well.

I do have a couple more questions.

First, is your R-code to simulate populations (as in your 2012 J of Animal
Ecology paper) publicly available somewhere? I'm thinking
simulating populations would help with confidence in my results.

Second, I'm having a little trouble interpreting the meanings of parameters
from the Gompertz bathtub model (I believe there are alpha0, alpha1, beta0,
beta1, and c). I see these are described mathematically in the BaSTA MME
supporting information, but I'm having trouble visualizing the
meanings. Specifically, I'm wondering at what values would these
parameters represent a bathtub shape for mortality.

Thanks,
Ken











On Sat, Feb 24, 2018 at 12:58 AM, Fernando Colchero <colchero at imada.sdu.dk>
wrote:

> Hi Ken,
>
>    Sorry for the late reply. You can use months, just bearing in mind that
> the parameters correspond then to the distribution of ages at death in
> months, not in years. There is an argument that you can use for the
> recapture probability changes during the months you didn’t sample, which is
> “recaptTrans”. That argument takes a vector of times during which recapture
> probabilities have changed.
>
>    About the lack of information on birth and death, in principle BaSTA
> can handle it, but of course, the less information, the higher the
> uncertainty in the estimation. We have tested the package on datasets
> without birth and death information and it works, but your setup is quite
> particular… Please let us know if you need more assistance. Also, I would
> recommend that you install the latest version of BaSTA. It is not in cran,
> but you can donwnload it from:
>
>   https://github.com/fercol/BaSTA/blob/master/latestBuild/
> BaSTA_1.9.5.tar.gz
>
> Best,
>
> Fernando
> _________________________________
>
> *Fernando Colchero*
> Associate Professor
> Department of Mathematics and Computer Science
> Biodemography Unit
>
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> Email          colchero at imada.sdu.dk
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>
> *University of Southern Denmark*
> _________________________________
>
>
>
>
> On 23 Feb 2018, at 22:36, Ken Honeycutt <rkenhoneycutt at gmail.com> wrote:
>
> Hi BaSTA users,
>
> I just noticed the partial capture history I posted for example did not
> appear as I expected; and the text continues after many many rows of 0s and
> 1s. Here's the capture history again in csv. Hopefully this is better.
>
> Thanks,
> Ken
>
> ID,Birth,Death,6,7,8,9,...,17,18,19,20
> 1,0,0,1,0,1,0,0,0,1,1,1
> 2,0,0,0,1,0,0,0,0,0,1,0
> 3,0,0,1,0,1,0,0,0,0,0,1
> 4,0,0,0,1,0,0,0,0,1,0,1
> …,0,0,1,0,1,0,0,0,0,1,1
> 1544,0,0,0,1,0,0,0,0,0,1,0
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