JAGS: A program for analysis of Bayesian graphical models using Gibbs sampling

Published on Jan 1, 2003
Martyn Plummer1
Estimated H-index: 1
JAGS is a program for Bayesian Graphical modelling which aims for compatibility with Classic BUGS. The program could eventually be developed as an R package. This article explains the motivations for this program, briefly describes the architecture and then discusses some ideas for a vectorized form of the BUGS language.
  • References (5)
  • Citations (1690)
Published on Oct 1, 2003in Scandinavian Actuarial Journal1.52
Mogens Bladt14
Estimated H-index: 14
Antonio Gonzalez1
Estimated H-index: 1
Steffen L. Lauritzen39
Estimated H-index: 39
In this paper we present a method for estimation of functionals depending on one or several phase-type distributions. This could for example be the ruin probability in a risk reserve process where claims are assumed to be of phase-type. The proposed method uses a Markov chain Monte Carlo simulation to reconstruct the Markov jump processes underlying the phase-type variables in combination with Gibbs sampling to obtain a stationary sequence of phase-type probability measures from the posterior di...
Published on Mar 10, 2002in Journal of Statistical Software11.65
Gregory R. Warnes5
Estimated H-index: 5
Hydra is an open-source, platform-neutral library for performing Markov Chain Monte Carlo. It implements the logic of standard MCMC samplers within a framework designed to be easy to use, extend, and integrate with other software tools. In this paper, we describe the problem that motivated our work, outline our goals for the Hydra pro ject, and describe the current features of the Hydra library. We then provide a step-by-step example of using Hydra to simulate from a mixture model drawn from can...
Published on Sep 1, 2000in Biometrics1.75
Chantal Guihenneuc-Jouyaux10
Estimated H-index: 10
(University of Paris),
Sylvia Richardson54
Estimated H-index: 54
(French Institute of Health and Medical Research),
Ira M. Longini61
Estimated H-index: 61
(Emory University)
Summary. Multistate models have been increasingly used to model natural history of many diseases as well as to characterize the follow-up of patients under varied clinical protocols. This modeling allows describing disease evolution, estimating the transition rates, and evaluating the therapy effects on progression. In many cases, the staging is defined on the basis of a discretization of the values of continuous markers (CD4 cell count for HIV application) that are subject to great variability ...
Published on Jun 1, 1993in Statistics in Medicine1.85
Linda Sharples51
Estimated H-index: 51
Coronary occlusive disease following cardiac transplantation is monitored using serial angiography, and graded on a 3 point scale according to the amount of narrowing observed in major vessels. Disease progression is modelled as a continuous time Markov process. The Gibbs sampler is used to estimate the marginal posterior distributions of the transition rates between grades of disease and from each grade to death.
Published on Jan 1, 1993
David J. Spiegelhalter76
Estimated H-index: 76
Andrew Thomas9
Estimated H-index: 9
+ 2 AuthorsDarren Lunn3
Estimated H-index: 3
Cited By1690
Published on Dec 1, 2019in Cognition3.54
Xiao Hu (BNU: Beijing Normal University), Liang Luo (BNU: Beijing Normal University), Stephen M. Fleming4
Estimated H-index: 4
(UCL: University College London)
Abstract Cognitive offloading refers to our reliance on the external environment in order to reduce cognitive demand. For instance, people write notes on paper or smartphones in order not to forget shopping lists or upcoming appointments. A plausible hypothesis is that such offloading relies on metamemory – our confidence in our future memory performance. However, this hypothesis has not been directly tested, and it remains unclear when and how people use external sources to aid their encoding a...
Published on May 1, 2019in Scientific Reports4.01
Nora Mitchell1
Estimated H-index: 1
(UNM: University of New Mexico),
Gregory L. Owens12
Estimated H-index: 12
(University of California, Berkeley)
+ 2 AuthorsKenneth D. Whitney26
Estimated H-index: 26
(UNM: University of New Mexico)
Hybridization is a common phenomenon, yet its evolutionary outcomes remain debated. Here, we ask whether hybridization can speed adaptive evolution using resynthesized hybrids between two species of Texas sunflowers (Helianthus annuus and H. debilis) that form a natural hybrid in the wild (H. annuus ssp. texanus). We established separate control and hybrid populations and allowed them to evolve naturally in a field evolutionary experiment. In a final common-garden, we measured fitness and a suit...
Published on Feb 19, 2019in Scientific Reports4.01
Katie O'Brien2
Estimated H-index: 2
(University of Cambridge),
Katie A. O’Brien (University of Cambridge)+ 11 AuthorsKay Mitchell10
Estimated H-index: 10
(University of Southampton)
At high altitude oxygen delivery to the tissues is impaired leading to oxygen insufficiency (hypoxia). Acclimatisation requires adjustment to tissue metabolism, the details of which remain incompletely understood. Here, metabolic responses to progressive environmental hypoxia were assessed through metabolomic and lipidomic profiling of human plasma taken from 198 human participants before and during an ascent to Everest Base Camp (5,300 m). Aqueous and lipid fractions of plasma were separated an...
Published on Dec 1, 2019in Parasites & Vectors3.03
Stefano Catalano7
Estimated H-index: 7
Amelia Symeou + 10 AuthorsGiuseppe Cringoli32
Estimated H-index: 32
Schistosomiasis and food-borne trematodiases are not only of major public health concern, but can also have profound implications for livestock production and wildlife conservation. The zoonotic, multi-host nature of many digenean trematodes is a significant challenge for disease control programmes in endemic areas. However, our understanding of the epidemiological role that animal reservoirs, particularly wild hosts, may play in the transmission of zoonotic trematodiases suffers a dearth of inf...
Published on Jan 3, 2019in Nature Communications11.88
Jan Gläscher24
Estimated H-index: 24
(California Institute of Technology),
Ralph Adolphs93
Estimated H-index: 93
(California Institute of Technology),
Daniel Tranel97
Estimated H-index: 97
(UI: University of Iowa)
The role of the frontal lobes in cognition and behavior has long been enigmatic. Over the past decade, computational models have provided a powerful approach to understanding cognition and decision-making. Here, we used a model-based approach to analyze data from a classical task used to assess frontal lobe function, the Wisconsin Card Sorting Test. We applied computational modeling and voxel-based lesion-symptom mapping in 328 patients with focal lesions, to uncover cognitive processes and neur...
Published on Apr 15, 2019in BMC Cancer2.93
Adrian D. Vickers1
Estimated H-index: 1
Katherine B. Winfree8
Estimated H-index: 8
(Eli Lilly and Company)
+ 5 AuthorsDavid P. Carbone67
Estimated H-index: 67
(OSU: Ohio State University)
Background Locally advanced or metastatic non-small cell lung cancer (NSCLC) that has progressed after first-line treatment has a poor prognosis. Recent randomized clinical trials (RCTs) have demonstrated survival benefits of alternative treatments to docetaxel. However, information is lacking on which patients benefit the most and what drug or regimen is optimal. We report a systematic review and network meta-analysis (NMA) of second-line treatments in all subgroup combinations determined by hi...
Published on Dec 1, 2019in Science of The Total Environment5.59
Mirka Laurila-Pant2
Estimated H-index: 2
(UH: University of Helsinki),
Samu Mäntyniemi16
Estimated H-index: 16
+ 1 AuthorsAnnukka Lehikoinen9
Estimated H-index: 9
(UH: University of Helsinki)
Abstract Participatory modelling increases the transparency of environmental planning and management processes and enhances the mutual understanding among different parties. We present a sequential probabilistic approach to involve stakeholders' views in the formal decision support process. A continuous Bayesian Belief Network (BBN) model is used to estimate population parameters for stakeholder groups, based on samples of individual value judgements. The approach allows quantification and visua...
Published on Apr 3, 2018in Scientific Reports4.01
Robert Miller18
Estimated H-index: 18
(TUD: Dresden University of Technology),
Lisa J. Weckesser4
Estimated H-index: 4
(TUD: Dresden University of Technology)
+ -2 AuthorsClemens Kirschbaum101
Estimated H-index: 101
(TUD: Dresden University of Technology)
To date, there is only scarce evidence for a considerable association of subjective and objective stress measures, which might be attributable to method bias (e.g., confounding) and/or asynchrony of their temporal changes. To validate different subjective stress measures by a physiological measure of long-term stress (hair cortisol concentrations; HCC), 37 heterosexual couples (N = 74) completed a 12-week internet-based assessment protocol comprised of a weekly hassle scale (WHS; once per week),...
Published on Dec 1, 2019in Nature Communications11.88
Severin Hauenstein2
Estimated H-index: 2
(Ebor: University of York),
Mrigesh Kshatriya (United Nations Environment Programme)+ 2 AuthorsColin M. Beale22
Estimated H-index: 22
(Ebor: University of York)
Poaching is contributing to rapid declines in elephant populations across Africa. Following high-profile changes in the political environment, the overall number of illegally killed elephants in Africa seems to be falling, but to evaluate potential conservation interventions we must understand the processes driving poaching rates at local and global scales. Here we show that annual poaching rates in 53 sites strongly correlate with proxies of ivory demand in the main Chinese markets, whereas bet...
Published on Mar 5, 2019in Scientific Reports4.01
Hideyuki Doi30
Estimated H-index: 30
(University of Hyogo),
Keiichi Fukaya7
Estimated H-index: 7
(National Institute for Environmental Studies)
+ 3 AuthorsMasaki Miya56
Estimated H-index: 56
(AMNH: American Museum of Natural History)
Environmental DNA (eDNA) metabarcoding is a recently developed method to assess biodiversity based on a high-throughput parallel DNA sequencing applied to DNA present in the ecosystem. Although eDNA metabarcoding enables a rapid assessment of biodiversity, it is prone to species detection errors that may occur at sequential steps in field sampling, laboratory experiments, and bioinformatics. In this study, we illustrate how the error rates in the eDNA metabarcoding-based species detection can be...
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