How to estimate the prevalence of hybrids

How many 🐺🐶 hybrids are there?! @NSantostasi shows how to estimate prevalence w/ #HMM imperfect detection in her @Ecol_Evol #Euring17 paper #openaccess 🤝 work w/ @SapienzaRoma @ISPRA_Press @wolfappcenter @umontpellier @CNRS_OccitaniE @INEE_CNRS 🇮🇹🇫🇷 pic.

New paper!

🤩🐺 New paper by unstoppable @LouvrierJulie "Accounting for #misidentification and #heterogeneity in #occupancy studies using #HMMs" #teamboulet #openaccess @EcoHMM #carnivorepapersbywomen @ONCFS_officiel @umontpellier @IsiteMUSE @CNRSenLR @INEE_CNRS — Olivier Gimenez 🥐 (@oaggimenez) 19 septembre18

Fitting dynamic occupancy models with TMB

Following my recent attempt to [fit a HMM model to capture-recapture data with TMB]( and the rather estonishing outcome (the code was > 300 time faster than the equivalent R code!), I was curious to add TMB to the [list of options I tried to fit dynamic occupancy models]( Well, the least I can say is that TMB is fast, damn fast!

Fitting HMM/multievent capture-recapture models with TMB

Following my attempts to fit a HMM model to [capture-recapture data with Rcpp](http://localhost:1313/post/multievent_in_rcpp/) and to [occupancy data with ADMB](http://localhost:1313/post/occupancy_in_admb/), a few colleagues suggested TMB as a potential alternative for several reasons (fast, allows for parallel computations, works with R, accomodates spatial stuff, easy implementation of random effects, and probably other reasons that I don't know).

Fitting multievent capture-recapture models with Rcpp

Following my previous post on [using ADMB to fit hidden Markov models](, I took some time to learn how to use Rcpp ([Eddelbuettel & Francois 2011](; [Eddelbuettel 2013](, a package that gives friendly access to the power of C++ and increase the speed of your R programs. Kudos to Dirk Eddelbuettel, Romain Francois and their colleagues, Rcpp is awesome!

Fitting occupancy models in ADMB

Some time ago, a student of mine got stuck when fitting dynamic occupancy models to real data in Jags because of the computational burden.

Laura Cowen's sabbatical

Laura Cowen from the Department of Math and Stat at University of Victoria (Canada) will be on a sabbatical with us for 3 months. We will be working on the applications of hidden Markov models to capture-recapture data.