{"id":252,"date":"2012-08-10T17:07:03","date_gmt":"2012-08-10T17:07:03","guid":{"rendered":"http:\/\/www-sop.inria.fr\/members\/Fabien.Campillo\/?page_id=252"},"modified":"2022-12-24T07:53:34","modified_gmt":"2022-12-24T07:53:34","slug":"ibm-forest","status":"publish","type":"page","link":"http:\/\/localhost:8888\/wordpress\/software\/ibm-forest\/","title":{"rendered":"IBM of forest dynamics"},"content":{"rendered":"\n<p><em>An&nbsp;Individual-based model simulator for forest dynamics including a zone of influence mark developed in 2008 and 2009 by <span style=\"color: #993300;\">Fabien Campillo, Nicolas Desassis and Marc Joannides<\/span> in the context of the ARC Inria project <a href=\"http:\/\/www-sop.inria.fr\/members\/Fabien.Campillo\/projects\/arc-micr\/\">MICR<\/a>, in Matlab.<\/em><\/p>\n<div id=\"attachment_2177\" style=\"width: 310px\" class=\"wp-caption alignright\"><img loading=\"lazy\" decoding=\"async\" aria-describedby=\"caption-attachment-2177\" class=\"wp-image-2177 size-medium\" src=\"http:\/\/localhost:8888\/wordpress\/wp-content\/uploads\/pictures\/ibm-forest-trees-300x201.jpg\" alt=\"\" width=\"300\" height=\"201\" srcset=\"http:\/\/localhost:8888\/wordpress\/wp-content\/uploads\/pictures\/ibm-forest-trees-300x201.jpg 300w, http:\/\/localhost:8888\/wordpress\/wp-content\/uploads\/pictures\/ibm-forest-trees.jpg 386w\" sizes=\"(max-width: 300px) 100vw, 300px\" \/><p id=\"caption-attachment-2177\" class=\"wp-caption-text\">Each individual i is represented by its position p<sup>i<\/sup> and the radius r<sup>i<\/sup> of its zone of influence (ZOI).<\/p><\/div>\n<p>This piece of software does not pretend to simulate realistic forest ecosystems, it aims at illustrating the simulation of spatiotemporal Markovian models of very simple terrestrial population dynamics.&nbsp;The proposed model is individual-based models (IBM) where each individual in the population is explicitly represented in the model as well as each mechanisms acting on each individual tree.&nbsp;This work aims at developing an individual-based Markovian model of forest dynamics with competition for the access to nutrients or light. The model combines pure jump mechanisms as birth\/dissemination, natural death (natural and by competition) together with a continuous mechanism of growth.<\/p>\n\n\n\n<p>The simulation software has been developed in collaboration with Nicolas Desassis. [<a href=\"https:\/\/gitlab.inria.fr\/campillo\/ibm-forest\">gitlab repository<\/a>]<\/p>\n\n\n\n<p><\/p>\n\n\n\n<h1 id=\"Documentation:\" >Documentation:<\/h1>\n<ul>\n<li>See the slides presented at the XXIVth International Biometric Conference in University College Dublin \u2014 July 13th to 18th 2008. [<a href=\"http:\/\/www-sop.inria.fr\/members\/Fabien.Campillo\/wp-content\/uploads\/2022\/12\/campillo2008g_slides.pdf\">PDF<\/a>]<\/li>\n<li>The algorithm is detailed and analyzed in&nbsp;Fabien Campillo and Marc Joannides. A spatially explicit Markovian individual-based model for terrestrial plant dynamics,&nbsp;arXiv:0904.3632v2, 2010. [<a href=\"http:\/\/www-sop.inria.fr\/members\/Fabien.Campillo\/wp-content\/uploads\/2022\/12\/campillo2009c.pdf\">PDF<\/a>]<\/li>\n<\/ul>\n\n\n\n<h1 id=\"A_run_of_the_IBM\" >A run of the IBM<\/h1>\n<p>Each individual is represented by its zone of influence (a circle):<\/p>\n\n\n\n<div class=\"wp-block-columns is-layout-flex wp-container-core-columns-layout-1 wp-block-columns-is-layout-flex\">\n<div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:25%\"><\/div>\n\n\n\n<div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:50%\">\n<figure class=\"wp-block-video\"><video autoplay controls loop muted src=\"http:\/\/localhost:8888\/wordpress\/wp-content\/uploads\/movies\/ibm_forest-1.mp4\"><\/video><\/figure>\n<\/div>\n\n\n\n<div class=\"wp-block-column is-layout-flow wp-block-column-is-layout-flow\" style=\"flex-basis:25%\"><\/div>\n<\/div>\n","protected":false},"excerpt":{"rendered":"<p>An&nbsp;Individual-based model simulator for forest dynamics including a zone of influence mark developed in 2008 and 2009 by Fabien Campillo, Nicolas Desassis and Marc Joannides in the context of the ARC Inria project MICR, in Matlab. This piece of software does not pretend to simulate realistic forest ecosystems, it aims at illustrating the simulation of [&hellip;]<\/p>\n","protected":false},"author":1,"featured_media":0,"parent":11,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"page-templates\/full-width.php","meta":{"footnotes":""},"_links":{"self":[{"href":"http:\/\/localhost:8888\/wordpress\/wp-json\/wp\/v2\/pages\/252"}],"collection":[{"href":"http:\/\/localhost:8888\/wordpress\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"http:\/\/localhost:8888\/wordpress\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"http:\/\/localhost:8888\/wordpress\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"http:\/\/localhost:8888\/wordpress\/wp-json\/wp\/v2\/comments?post=252"}],"version-history":[{"count":85,"href":"http:\/\/localhost:8888\/wordpress\/wp-json\/wp\/v2\/pages\/252\/revisions"}],"predecessor-version":[{"id":2432,"href":"http:\/\/localhost:8888\/wordpress\/wp-json\/wp\/v2\/pages\/252\/revisions\/2432"}],"up":[{"embeddable":true,"href":"http:\/\/localhost:8888\/wordpress\/wp-json\/wp\/v2\/pages\/11"}],"wp:attachment":[{"href":"http:\/\/localhost:8888\/wordpress\/wp-json\/wp\/v2\/media?parent=252"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}