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      Climate drivers of plague epidemiology in British India, 1898–1949

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          Abstract

          Plague, caused by Yersinia pestis infection, continues to threaten low- and middle-income countries throughout the world. The complex interactions between rodents and fleas with their respective environments challenge our understanding of human plague epidemiology. Historical long-term datasets of reported plague cases offer a unique opportunity to elucidate the effects of climate on plague outbreaks in detail. Here, we analyse monthly plague deaths and climate data from 25 provinces in British India from 1898 to 1949 to generate insights into the influence of temperature, rainfall and humidity on the occurrence, severity and timing of plague outbreaks. We find that moderate relative humidity levels of between 60% and 80% were strongly associated with outbreaks. Using wavelet analysis, we determine that the nationwide spread of plague was driven by changes in humidity, where, on average, a one-month delay in the onset of rising humidity translated into a one-month delay in the timing of plague outbreaks. This work can inform modern spatio-temporal predictive models for the disease and aid in the development of early-warning strategies for the deployment of prophylactic treatments and other control measures.

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          Inference from Iterative Simulation Using Multiple Sequences

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            bayestestR: Describing Effects and their Uncertainty, Existence and Significance within the Bayesian Framework

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              Bayesian hypothesis testing for psychologists: a tutorial on the Savage-Dickey method.

              In the field of cognitive psychology, the p-value hypothesis test has established a stranglehold on statistical reporting. This is unfortunate, as the p-value provides at best a rough estimate of the evidence that the data provide for the presence of an experimental effect. An alternative and arguably more appropriate measure of evidence is conveyed by a Bayesian hypothesis test, which prefers the model with the highest average likelihood. One of the main problems with this Bayesian hypothesis test, however, is that it often requires relatively sophisticated numerical methods for its computation. Here we draw attention to the Savage-Dickey density ratio method, a method that can be used to compute the result of a Bayesian hypothesis test for nested models and under certain plausible restrictions on the parameter priors. Practical examples demonstrate the method's validity, generality, and flexibility. Copyright 2009 Elsevier Inc. All rights reserved.
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                Author and article information

                Journal
                Proc Biol Sci
                Proc. Biol. Sci
                RSPB
                royprsb
                Proceedings of the Royal Society B: Biological Sciences
                The Royal Society
                0962-8452
                1471-2954
                10 June 2020
                10 June 2020
                10 June 2020
                : 287
                : 1928
                : 20200538
                Affiliations
                [1 ]The Zeeman Institute: SBIDER, University of Warwick , Coventry CV4 7AL, UK
                [2 ]Mathematics Institute, University of Warwick , Coventry CV4 7AL, UK
                [3 ]School of Life Sciences, University of Warwick , Coventry CV4 7AL, UK
                [4 ]Department of Statistics, University of Warwick , Coventry CV4 7AL, UK
                Author notes

                Electronic supplementary material is available online at https://doi.org/10.6084/m9.figshare.c.5003585.

                Author information
                http://orcid.org/0000-0001-5822-6887
                http://orcid.org/0000-0002-6875-7232
                http://orcid.org/0000-0002-8375-5542
                http://orcid.org/0000-0003-4639-4765
                Article
                rspb20200538
                10.1098/rspb.2020.0538
                7341932
                32517609
                24011186-7540-4e5d-bb91-526f5b474645
                © 2020 The Authors.

                Published by the Royal Society under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/4.0/, which permits unrestricted use, provided the original author and source are credited.

                History
                : 9 March 2020
                : 19 May 2020
                Funding
                Funded by: National Institute for Health Research, http://dx.doi.org/10.13039/501100000272;
                Award ID: PR-OD-1017-20002
                Funded by: Medical Research Council, http://dx.doi.org/10.13039/501100000265;
                Award ID: MR/P026400/1
                Categories
                1001
                87
                Ecology
                Research Article
                Custom metadata
                June 10, 2020

                Life sciences
                plague,yersinia pestis,climate,british india,third plague pandemic
                Life sciences
                plague, yersinia pestis, climate, british india, third plague pandemic

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