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hmecology: Hierarchical Modeling in Ecology

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This is an email list for discussion of hierarchical modeling in ecology and especially related to the book by Royle and Dorazio (2008), Kery and Schaub (2012) and forthcoming.

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Nov 25

Fw: Draft workshop announcement

Dear all, in June 2026, Michael Schaub and I are going to teach a 5-day Bayesian modeling workshop at

unread,

Fw: Draft workshop announcement

Dear all, in June 2026, Michael Schaub and I are going to teach a 5-day Bayesian modeling workshop at

Nov 25

Thomas Duchesne, … Perry de Valpine7

Nov 24

Big citizen science dynamic occupancy models and thinning effect

Thanks for suggesting this, Matthijs. FWIW, nimble provides a "noncentered" sampler that

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Big citizen science dynamic occupancy models and thinning effect

Thanks for suggesting this, Matthijs. FWIW, nimble provides a "noncentered" sampler that

Nov 24

Carlotta Gelsomini

Nov 12

Modeling group-living animals in oSCR / SCR frameworks

Hi all, We are planning to use oSCR to estimate density for our species, which has two male tactics

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Modeling group-living animals in oSCR / SCR frameworks

Hi all, We are planning to use oSCR to estimate density for our species, which has two male tactics

Nov 12

Trinh Dinh Hoang, … Marc Kery5

Nov 12

Addressing R-hat=NA

Hi, The issue with NA values has been resolved by using the MCMCvis package instead of mcmcOutput.

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Addressing R-hat=NA

Hi, The issue with NA values has been resolved by using the MCMCvis package instead of mcmcOutput.

Nov 12

Nov 9

Greeting --------------------------------------------------------------------------------------------

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Greeting --------------------------------------------------------------------------------------------

Nov 9

Nov 4

PhD vacancy - Developing IPMs for Black-tailed Godwit Conservation

Dear everyone, The University of Amsterdam (The Netherlands) has a vacancy for a 4-year PhD position,

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PhD vacancy - Developing IPMs for Black-tailed Godwit Conservation

Dear everyone, The University of Amsterdam (The Netherlands) has a vacancy for a 4-year PhD position,

Nov 4

Devin Fitzpatrick

Oct 22

Integrated occupancy model with JAGS troubleshooting

Hi all, I was wondering if anyone has experience with integrated occupancy modelling (combining

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Integrated occupancy model with JAGS troubleshooting

Hi all, I was wondering if anyone has experience with integrated occupancy modelling (combining

Oct 22

Chris Sutherland

Oct 15

ANNOUNCEMENT: ISEC 2027 in Mérida, México, January 8-15, 2027

Hello friends and colleagues, Please see below the exciting news about ISEC27! Chris * I sometimes

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ANNOUNCEMENT: ISEC 2027 in Mérida, México, January 8-15, 2027

Hello friends and colleagues, Please see below the exciting news about ISEC27! Chris * I sometimes

Oct 15

mato...@gmail.com

Sep 18

Post-doctoral researcher in population ecology

Hi all, my team is looking for a post-doctoral researcher to work on the population ecology of large

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Post-doctoral researcher in population ecology

Hi all, my team is looking for a post-doctoral researcher to work on the population ecology of large

Sep 18

Sep 18

Post-doctoral researcher in mathematical-statistical population modeling (2 years)

Dear colleagues, I am looking for a postdoctoral researcher in mathematical-statistical population

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Post-doctoral researcher in mathematical-statistical population modeling (2 years)

Dear colleagues, I am looking for a postdoctoral researcher in mathematical-statistical population

Sep 18

Mathilde, Jeffrey Royle2

Aug 25

Question on variable significance in dynamic occupancy model (unmarked)

hi Mathilde, Unfortunately you're out of luck in this situation -- complete separation means that

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Question on variable significance in dynamic occupancy model (unmarked)

hi Mathilde, Unfortunately you're out of luck in this situation -- complete separation means that

Aug 25

Aug 19

Bayesian Population Analysis with NIMBLE

Dear all, We are currently working on a 2 nd edition of the BPA book from back in 2012, which will be

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Bayesian Population Analysis with NIMBLE

Dear all, We are currently working on a 2 nd edition of the BPA book from back in 2012, which will be

Aug 19

Aug 14

Fw: Statistical Scientist / Research Associate position at the Cornell Lab of Ornithology

Perhaps of interest to some on this list. Best regards --- Marc From: Daniel Fink <daniel.fink@

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Fw: Statistical Scientist / Research Associate position at the Cornell Lab of Ornithology

Perhaps of interest to some on this list. Best regards --- Marc From: Daniel Fink <daniel.fink@

Aug 14

Michael Schaub, Perry de Valpine2

Aug 14

Cautionary note for using categorical or multinomial distributions

Hi Michael, Thanks for sharing this. It is quite interesting. As you explain at the end, nimble (and

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Cautionary note for using categorical or multinomial distributions

Hi Michael, Thanks for sharing this. It is quite interesting. As you explain at the end, nimble (and

Aug 14

Marc Kery, Matthijs Hollanders3

Jul 8

why it's not enough to scan values of (simple) Rhat blindly

Dear Matt, to be honest, I can't remember :( I think I have never seen this sort of pathology,

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why it's not enough to scan values of (simple) Rhat blindly

Dear Matt, to be honest, I can't remember :( I think I have never seen this sort of pathology,

Jul 8

Jul 7

Capture-recapture workshop in Mallorca/Spain, 24-28 Nov 2025

Dear colleagues, Giacomo Tavecchia and his group at the IMEDEA in Esporles/Spain are offering a

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Capture-recapture workshop in Mallorca/Spain, 24-28 Nov 2025

Dear colleagues, Giacomo Tavecchia and his group at the IMEDEA in Esporles/Spain are offering a

Jul 7

Marc Kery, falaf...@gmail.com3

Jun 27

Cautionary note on the use of Rhat alone to decide on sufficient chain length

Dear Jeff, thanks a lot ! Will try out sometimes (I am still mostly a JAGS user ;)...). This is

unread,

Cautionary note on the use of Rhat alone to decide on sufficient chain length

Dear Jeff, thanks a lot ! Will try out sometimes (I am still mostly a JAGS user ;)...). This is

Jun 27

falaf...@gmail.com2

Jun 25

Density dependence in an integrated population model with prior parameter estimates

Update: issue fixed, with a great assist from Dr. Heather Gaya in the NIMBLE group. Thanks, Jeff On

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Density dependence in an integrated population model with prior parameter estimates

Update: issue fixed, with a great assist from Dr. Heather Gaya in the NIMBLE group. Thanks, Jeff On

Jun 25

Perry de Valpine

Jun 22

Fwd: Quantitative Ecologist Position at CDFW

The California Department of Fish and Wildlife has a position that will be of interest to some on

unread,

Fwd: Quantitative Ecologist Position at CDFW

The California Department of Fish and Wildlife has a position that will be of interest to some on

Jun 22

Carlos, … Matthijs Hollanders5

Jun 18

Occupancy models with latent variables in both occupancy and detection submodels

Hi Matt and John. It's good to know that there are already simulations and publications exploring

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Occupancy models with latent variables in both occupancy and detection submodels

Hi Matt and John. It's good to know that there are already simulations and publications exploring

Jun 18

Jun 12

Bayesian Population Analysis Workshop @ Sempach, Dec 2025

Dear Julia, sorry, but no. We are just not fans of online/hybrid courses. Admittedly, an online

unread,

Bayesian Population Analysis Workshop @ Sempach, Dec 2025

Dear Julia, sorry, but no. We are just not fans of online/hybrid courses. Admittedly, an online

Jun 12

May 23

Applied Hierarchical Modeling workshop, OSU, October 2025 (registration open now !)

Dear all, as announced previously, Joshua Twining, Ken Kellner, Andy Royle and myself will teach a 1-

unread,

Applied Hierarchical Modeling workshop, OSU, October 2025 (registration open now !)

Dear all, as announced previously, Joshua Twining, Ken Kellner, Andy Royle and myself will teach a 1-

May 23

May 8

Use of the correlation coefficient to study effects of demographic rates on population growth rate in an IPM

Dear all, in the attached memo, we describe our current understanding of the issue brought up by

unread,

Use of the correlation coefficient to study effects of demographic rates on population growth rate in an IPM

Dear all, in the attached memo, we describe our current understanding of the issue brought up by

May 8

May 2

possible AHM workshop at OSU in the fall

Dear all, We (Andy Royle, Josh Twining, Ken Kellner, and I) are hoping to run an in-person Applied

unread,

possible AHM workshop at OSU in the fall

Dear all, We (Andy Royle, Josh Twining, Ken Kellner, and I) are hoping to run an in-person Applied

May 2

Facundo Palacio, Marc Kery4

Apr 29

Conceptual question on N-Mixture models with data augmentation

Dear Marc, I've drafted an initial version of the model. Based on your feedback, I incorporated

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Conceptual question on N-Mixture models with data augmentation

Dear Marc, I've drafted an initial version of the model. Based on your feedback, I incorporated

Apr 29

Apr 28

Two PhD and postdoc positions

Dear all, my colleague Joanie Van de Walle just asked whether it was possible for me to post two

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Two PhD and postdoc positions

Dear all, my colleague Joanie Van de Walle just asked whether it was possible for me to post two

Apr 28

Trevor Davies, Michael Schaub3

Apr 24

M-array CLS model with 3 survival parameters

Hi Trevor, But I think there are still errors in your code – the time indices are not correct. I have

unread,

M-array CLS model with 3 survival parameters

Hi Trevor, But I think there are still errors in your code – the time indices are not correct. I have

Apr 24

Apr 23

Regression-to-the-mean modification in the MCMC

I'm working on an analysis that involves a regression-to-the-mean issue. I have a vague memory of

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Regression-to-the-mean modification in the MCMC

I'm working on an analysis that involves a regression-to-the-mean issue. I have a vague memory of

Apr 23

Matthew Hyde, Marc Kery3

Apr 23

Creating detection matrix for n-mixture model

Hi Mark, Thank you very much for the thorough explanation! I'm trying to fit the model in JAGS,

unread,

Creating detection matrix for n-mixture model

Hi Mark, Thank you very much for the thorough explanation! I'm trying to fit the model in JAGS,

Apr 23

FelicityE, Matthew Hyde2

Apr 22

spOccupancy advice for seasonal camera trap data

Hi Felicity, What do you mean by unpick the spOccupancy options? I think if you're between model

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spOccupancy advice for seasonal camera trap data

Hi Felicity, What do you mean by unpick the spOccupancy options? I think if you're between model

Apr 22

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