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janoleko

LaMa:Fast Numerical Maximum Likelihood Estimation for Latent Markov Models

A variety of latent Markov models, including hidden Markov models, hidden semi-Markov models, state-space models and continuous-time variants can be formulated and estimated within the same framework via directly maximising the likelihood function using the so-called forward algorithm. Applied researchers often need custom models that standard software does not easily support. Writing tailored 'R' code offers flexibility but suffers from slow estimation speeds. We address these issues by providing easy-to-use functions (written in 'C++' for speed) for common tasks like the forward algorithm. These functions can be combined into custom models in a Lego-type approach, offering up to 10-20 times faster estimation via standard numerical optimisers. To aid in building fully custom likelihood functions, several vignettes are included that show how to simulate data from and estimate all the above model classes.

Maintained by Jan-Ole Koslik. Last updated 3 days ago.

openblascppopenmp

9 stars 7.86 score 42 scripts

staffanbetner

rethinking:Statistical Rethinking book package

Utilities for fitting and comparing models

Maintained by Richard McElreath. Last updated 4 months ago.

5.42 score 4.4k scripts

mikemeredith

wiqid:Quick and Dirty Estimates for Wildlife Populations

Provides simple, fast functions for maximum likelihood and Bayesian estimates of wildlife population parameters, suitable for use with simulated data or bootstraps. Early versions were indeed quick and dirty, but optional error-checking routines and meaningful error messages have been added. Includes single and multi-season occupancy, closed capture population estimation, survival, species richness and distance measures.

Maintained by Ngumbang Juat. Last updated 2 years ago.

2 stars 4.84 score 115 scripts 1 dependents

ai4ci

ggoutbreak:Estimate Incidence, Proportions and Exponential Growth Rates

Simple statistical models and visualisations for calculating the incidence, proportion, exponential growth rate, and reproduction number of infectious disease case time series. This toolkit was largely developed during the COVID-19 pandemic.

Maintained by Robert Challen. Last updated 2 months ago.

1 stars 4.30 score

kenkellner

IPMbook:Functions and Data for the Book 'Integrated Population Models'

Provides functions and data sets to accompany the book 'Integrated Population Models: Theory and Ecological Applications with R and JAGS' by Michael Schaub and Marc Kéry (ISBN: 9780128205648).

Maintained by Ken Kellner. Last updated 2 months ago.

1 stars 3.95 score 177 scripts

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