{"id":53,"date":"2020-02-05T22:45:00","date_gmt":"2020-02-05T22:45:00","guid":{"rendered":"http:\/\/blogs.kent.ac.uk\/edna\/?page_id=53"},"modified":"2022-04-30T12:27:27","modified_gmt":"2022-04-30T11:27:27","slug":"details-on-the-model","status":"publish","type":"page","link":"https:\/\/blogs.kent.ac.uk\/edna\/qpcr-data\/details-on-the-model\/","title":{"rendered":"Details on the model"},"content":{"rendered":"<p>The model has been developed for single species qPCR data. The data are the number of positive qPCRs (eDNA score) for each water sample collected at surveyed sites.<\/p>\n<p>The model allows us to estimate the probability of species presence at each surveyed site, while accounting for the probabilities of a false positive and false negative error at stage 1 (field) and stage 2 (lab).<\/p>\n<p>The model parameters are<\/p>\n<p><img loading=\"lazy\" class=\" wp-image-72 aligncenter\" src=\"http:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/parameters-1-300x215.jpg\" alt=\"\" width=\"695\" height=\"498\" srcset=\"https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/parameters-1-300x215.jpg 300w, https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/parameters-1-768x550.jpg 768w, https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/parameters-1-1024x733.jpg 1024w, https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/parameters-1-624x447.jpg 624w, https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/parameters-1.jpg 1240w\" sizes=\"(max-width: 695px) 100vw, 695px\" \/><\/p>\n<p>A schematic representation of the model is shown below<\/p>\n<p><img loading=\"lazy\" class=\" wp-image-75 aligncenter\" src=\"http:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/DAG-1-300x228.jpg\" alt=\"\" width=\"641\" height=\"487\" srcset=\"https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/DAG-1-300x228.jpg 300w, https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/DAG-1-768x583.jpg 768w, https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/DAG-1-624x474.jpg 624w, https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/DAG-1.jpg 1010w\" sizes=\"(max-width: 641px) 100vw, 641px\" \/><img loading=\"lazy\" class=\" wp-image-76 aligncenter\" style=\"font-size: 1rem\" src=\"http:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/explanation-300x151.jpg\" alt=\"\" width=\"654\" height=\"328\" srcset=\"https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/explanation-300x151.jpg 300w, https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/explanation-768x386.jpg 768w, https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/explanation-1024x515.jpg 1024w, https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/explanation-624x314.jpg 624w, https:\/\/blogs.kent.ac.uk\/edna\/files\/2020\/02\/explanation.jpg 1252w\" sizes=\"(max-width: 654px) 100vw, 654px\" \/><\/p>\n<p>The model is fitted within a Bayesian framework and any of the model parameters can be functions of covariates. The implemented algorithm performs Bayesian variable selection and the output includes posterior summaries of all parameters as well as posterior probabilities of inclusion (see <a href=\"https:\/\/blogs.kent.ac.uk\/edna\/examples\/\" target=\"_blank\" rel=\"noopener noreferrer\">examples<\/a> and <a href=\"https:\/\/kar.kent.ac.uk\/78219\/1\/edna.pdf\" target=\"_blank\" rel=\"noopener noreferrer\">Griffin, J. E., Matechou, E. Buxton, A. S., Bormpoudakis, D. and Griffiths, R. A., (2020<\/a><a href=\"https:\/\/kar.kent.ac.uk\/78219\/1\/edna.pdf\" target=\"_blank\" rel=\"noopener noreferrer\">) Modelling environmental DNA data; Bayesian variable selection accounting for false positive and false negative errors, Journal of the Royal Statistical Society: Series C (Applied Statistics)<\/a> for a more detailed description of how to interpret the output).<\/p>\n","protected":false},"excerpt":{"rendered":"<p>The model has been developed for single species qPCR data. The data are the number of positive qPCRs (eDNA score) for each water sample collected at surveyed sites. The model allows us to estimate the probability of species presence at each surveyed site, while accounting for the probabilities of a false positive and false negative [&hellip;]<\/p>\n","protected":false},"author":40694,"featured_media":0,"parent":142,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":[],"_links":{"self":[{"href":"https:\/\/blogs.kent.ac.uk\/edna\/wp-json\/wp\/v2\/pages\/53"}],"collection":[{"href":"https:\/\/blogs.kent.ac.uk\/edna\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blogs.kent.ac.uk\/edna\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.kent.ac.uk\/edna\/wp-json\/wp\/v2\/users\/40694"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.kent.ac.uk\/edna\/wp-json\/wp\/v2\/comments?post=53"}],"version-history":[{"count":15,"href":"https:\/\/blogs.kent.ac.uk\/edna\/wp-json\/wp\/v2\/pages\/53\/revisions"}],"predecessor-version":[{"id":161,"href":"https:\/\/blogs.kent.ac.uk\/edna\/wp-json\/wp\/v2\/pages\/53\/revisions\/161"}],"up":[{"embeddable":true,"href":"https:\/\/blogs.kent.ac.uk\/edna\/wp-json\/wp\/v2\/pages\/142"}],"wp:attachment":[{"href":"https:\/\/blogs.kent.ac.uk\/edna\/wp-json\/wp\/v2\/media?parent=53"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}