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!DOCTYPE html>html langen>head>  meta charsetutf-8>  meta http-equivX-UA-Compatible contentIEedge>  meta nameviewport contentwidthdevice-width, initial-scale1>!-- Begin Jekyll SEO tag v2.8.0 -->title>bdtoolbox.org | Brain Dynamics Toolbox/title>meta namegenerator contentJekyll v3.10.0 />meta propertyog:title contentbdtoolbox.org />meta nameauthor contentStewart Heitmann />meta propertyog:locale contenten_US />meta namedescription contentBrain Dynamics Toolbox />meta propertyog:description contentBrain Dynamics Toolbox />link relcanonical hrefhttps://bdtoolbox.org/ />meta propertyog:url contenthttps://bdtoolbox.org/ />meta propertyog:site_name contentbdtoolbox.org />meta propertyog:type contentwebsite />meta nametwitter:card contentsummary />meta propertytwitter:title contentbdtoolbox.org />script typeapplication/ld+json>{@context:https://schema.org,@type:WebSite,author:{@type:Person,name:Stewart Heitmann},description:Brain Dynamics Toolbox,headline:bdtoolbox.org,name:bdtoolbox.org,url:https://bdtoolbox.org/}/script>!-- End Jekyll SEO tag -->link relstylesheet href/assets/main.css>link typeapplication/atom+xml relalternate hrefhttps://bdtoolbox.org/feed.xml titlebdtoolbox.org />/head>body>header classsite-header rolebanner>  div classwrapper>a classsite-title relauthor href/>bdtoolbox.org/a>nav classsite-nav>        input typecheckbox idnav-trigger classnav-trigger />        label fornav-trigger>          span classmenu-icon>            svg viewBox0 0 18 15 width18px height15px>              path dM18,1.484c0,0.82-0.665,1.484-1.484,1.484H1.484C0.665,2.969,0,2.304,0,1.484l0,0C0,0.665,0.665,0,1.484,0 h15.032C17.335,0,18,0.665,18,1.484L18,1.484z M18,7.516C18,8.335,17.335,9,16.516,9H1.484C0.665,9,0,8.335,0,7.516l0,0 c0-0.82,0.665-1.484,1.484-1.484h15.032C17.335,6.031,18,6.696,18,7.516L18,7.516z M18,13.516C18,14.335,17.335,15,16.516,15H1.484 C0.665,15,0,14.335,0,13.516l0,0c0-0.82,0.665-1.483,1.484-1.483h15.032C17.335,12.031,18,12.695,18,13.516L18,13.516z fillwhite/>            /svg>          /span>        /label>        div classtrigger>          a classpage-link href/index> Home /a>          a classpage-link href/about> About /a>          a classpage-link hrefhttps://bdtoolbox.teachable.com/courses> Courses /a>          a classpage-link href/gallery> Gallery /a>          a classpage-link hrefhttps://bdtoolbox.teachable.com/sign_in> Login /a>        /div>      /nav>/div>/header>main classpage-content aria-labelContent>      div classwrapper>        div classhome>div classBlueBlackground>  h1 stylefont-family:Times New Roman;font-size:50px;font-weight:700>Brain Dynamics Toolbox/h1>  p stylefont-size:18px;padding:0px 10px 25px 10px>Open software for simulating dynamical systems in neuroscience/p>  p>a hrefhttps://zenodo.org/records/10112763/files/bdtoolbox-2023a.zip?download1>button classbannerbutton stylepadding:18px; border-radius:26px; font-weight:700>Download Version 2023a/button>/a>/p>/div>p>br />The strong>Brain Dynamics Toolbox/strong> is open-source matlab software for simulating bespoke dynamical systems in neuroscience and beyond. Users define their system of equations as a custom matlab function. Interchangeable solvers and plotting tools can then be applied to that system with no additional programming effort./p>p>img srcassets/home/MorrisLecarHopf.gif width80% altThe Brain Dynamics Toolbox in action />/p>h2 iddifferential-equations>strong>Differential Equations/strong>/h2>p>The toolbox solves initial-value problems in Ordinary Differential Equations (ODEs), Delay Differential Equations (DDEs), Stochastic Differential Equations (SDEs) and Partial Differential Equations (PDEs)./p>p>img srcassets/home/FitzHughNagumoCode.png width80% altExample user-defined ODE />/p>h2 idcombinatorial-power>strong>Combinatorial Power/strong>/h2>p>The hub-and-spoke architecture allows unlimited combinations of display panels and numerical solvers to be applied to any model at run-time./p>p>img srcassets/home/IdeogramWebsite.png width80% altHub-and-Spoke Software Architecture />/p>h2 idprogrammable-controls>strong>Programmable Controls/strong>/h2>p>The graphical controls can be manipulated from the matlab workspace to semi-automate parameter surveys. Fully automated simulations can be scripted with the toolbox’s command-line tools./p>p>img srcassets/home/WorkspaceCommands.png width80% altWorkspace Commands />/p>h2 idofficial-handbook>strong>Official Handbook/strong>/h2>p>a href/assets/home/PaperbackCoverArt-2023.png>img srcassets/home/PaperbackCoverArt-2023.png width80% altHandbook for the Brain Dynamics Toolbox />/a>/p>p>a hrefhttps://github.com/bdtoolbox-org/bdtoolbox/releases/download/2023a/HandbookSample2023.pdf>button classbannerbutton stylewidth:40%; font-size:1.0rem;>Sample Chapter/button>/a>a hrefhttps://www.amazon.com/dp/0645066931>button classbannerbutton stylewidth:40%; font-size:1.0rem;>Shop on Amazon/button>/a>/p>h2 idonline-courses>strong>Online Courses/strong>/h2>p>a hrefhttps://bdtoolbox.teachable.com/p/toolbox-basics>img srcassets/home/ToolboxBasics.png width40% altToolbox Basics Course />/a>a hrefhttps://bdtoolbox.teachable.com/p/modellers-workshop>img srcassets/home/ModellersWorkshop.png width40% altModellers Workshop />/a>/p>h2 idcommunity-collection>strong>Community Collection/strong>/h2>p>Users can share their models on the a hrefhttps://zenodo.org/communities/bdtoolbox>Community Collection/a> hosted by Zenodo. All uploads are citeable./p>p>a hrefhttps://zenodo.org/communities/bdtoolbox>img srcassets/home/zenodo-gradient-200.png altZenodo />/a>/p>p>br />/p>div classBlueBlackground styletext-align:left; padding-top:12px; padding-left:75px; padding-right:75px>  h3 idfirst-prize-winner-dynamical-systems-2018-software-contest>First Prize Winner, Dynamical Systems 2018 Software Contest./h3>  p>Society for Industrial and Applied Mathematics (SIAM), Postdoc / Junior Faculty Category./p>  h3 idhonourable-mention-dynamical-systems-2019-software-tutorials-contest>Honourable Mention, Dynamical Systems 2019 Software Tutorials Contest./h3>  p>Society for Industrial and Applied Mathematics (SIAM), Postdoc / Junior Faculty Category./p>  h3 ida-fantastic-and-open-resource-for-all-interested-in-simulating-dynamical-systems-in-neuroscience>“A fantastic (and open) resource for all interested in simulating dynamical systems in neuroscience”/h3>  p>— Prof Olaf Sporns, Co-director of the Indiana University Network Science Institute./p>  h3 idthis-easy-to-use-toolbox-has-greatly-enhanced-the-modelling-work-we-do-in-our-lab>“This easy-to-use toolbox has greatly enhanced the modelling work we do in our lab”/h3>  p>— Prof Alex Fornito, Co-director of the Brain & Mental Health Research Hub, Monash University./p>  h3 idfrees-students-of-the-implementation-burden-and-allows-me-to-teach-the-dynamical-concepts>“Frees students of the implementation burden and allows me to teach the dynamical concepts”/h3>  p>— Dr Ben D Fulcher, Senior Lecturer in the School of Physics, The University of Sydney./p>  h3 idan-intuitive-and-insightful-platform-for-modelling-any-dynamical-system>“An intuitive and insightful platform for modelling any dynamical system”/h3>  p>— Dr Darragh Walsh, Postdoctoral Researcher, DCU Insight./p>  h3 ida-great-way-to-get-into-modeling-and-understanding-the-dynamics-you-thought-you-understood>“A great way to get into modeling and understanding the dynamics you thought you understood!”/h3>  p>— Dr Fran Hancock, Postdoctoral Researcher, Kings College London./p>  h3 idi-love-the-brain-dynamics-toolbox-very-intuitive-way-of-understanding-dynamical-systems-and-exploring-bifurcations>“I love the Brain Dynamics Toolbox. Very intuitive way of understanding dynamical systems and exploring bifurcations!”/h3>  p>— Caglar Cakan, PhD student, Neural Information Processing Group, Technische Universitat Berlin./p>/div>/div>      /div>    /main>footer classsite-footer h-card>  data classu-url href/>/data>  div classwrapper>    !-- h2 classfooter-heading>bdtoolbox.org/h2> -->    div classfooter-col-wrapper>      div classfooter-col footer-col-1>        ul classcontact-list>          li classp-name>Stewart Heitmann/li>li>a classu-email href/cdn-cgi/l/email-protection#a5cdc0ccd1c8c4cbcbe5c7c1d1cacac9c7cadd8bcad7c2>span class__cf_email__ data-cfemail157d707c6178747b7b557771617a7a79777a6d3b7a6772>email protected/span>/a>/li>/ul>      /div>      div classfooter-col footer-col-2>        !--ul classsocial-media-list>/ul>-->        ul classsocial-media-list>          li>a relme hrefhttps://mastodon.au/@bdtoolbox>svg classsvg-icon>use xlink:href/assets/minima-social-icons.svg#mastodon>/use>/svg> span classusername>bdtoolbox/span>/a>/li>          li>a hrefhttps://github.com/bdtoolbox-org>svg classsvg-icon>use xlink:href/assets/minima-social-icons.svg#github>/use>/svg> span classusername>bdtoolbox-org/span>/a>/li>        /ul>              /div>      div classfooter-col footer-col-3>        !-- p>Brain Dynamics Toolbox/p> -->        p> © bdtoolbox.org 2022/p>      /div>    /div>  /div>/footer>script data-cfasyncfalse src/cdn-cgi/scripts/5c5dd728/cloudflare-static/email-decode.min.js>/script>/body>/html>

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!DOCTYPE html>html langen>head>  meta charsetutf-8>  meta http-equivX-UA-Compatible contentIEedge>  meta nameviewport contentwidthdevice-width, initial-scale1>!-- Begin Jekyll SEO tag v2.8.0 -->title>bdtoolbox.org | Brain Dynamics Toolbox/title>meta namegenerator contentJekyll v3.10.0 />meta propertyog:title contentbdtoolbox.org />meta nameauthor contentStewart Heitmann />meta propertyog:locale contenten_US />meta namedescription contentBrain Dynamics Toolbox />meta propertyog:description contentBrain Dynamics Toolbox />link relcanonical hrefhttps://bdtoolbox.org/ />meta propertyog:url contenthttps://bdtoolbox.org/ />meta propertyog:site_name contentbdtoolbox.org />meta propertyog:type contentwebsite />meta nametwitter:card contentsummary />meta propertytwitter:title contentbdtoolbox.org />script typeapplication/ld+json>{@context:https://schema.org,@type:WebSite,author:{@type:Person,name:Stewart Heitmann},description:Brain Dynamics Toolbox,headline:bdtoolbox.org,name:bdtoolbox.org,url:https://bdtoolbox.org/}/script>!-- End Jekyll SEO tag -->link relstylesheet href/assets/main.css>link typeapplication/atom+xml relalternate hrefhttps://bdtoolbox.org/feed.xml titlebdtoolbox.org />/head>body>header classsite-header rolebanner>  div classwrapper>a classsite-title relauthor href/>bdtoolbox.org/a>nav classsite-nav>        input typecheckbox idnav-trigger classnav-trigger />        label fornav-trigger>          span classmenu-icon>            svg viewBox0 0 18 15 width18px height15px>              path dM18,1.484c0,0.82-0.665,1.484-1.484,1.484H1.484C0.665,2.969,0,2.304,0,1.484l0,0C0,0.665,0.665,0,1.484,0 h15.032C17.335,0,18,0.665,18,1.484L18,1.484z M18,7.516C18,8.335,17.335,9,16.516,9H1.484C0.665,9,0,8.335,0,7.516l0,0 c0-0.82,0.665-1.484,1.484-1.484h15.032C17.335,6.031,18,6.696,18,7.516L18,7.516z M18,13.516C18,14.335,17.335,15,16.516,15H1.484 C0.665,15,0,14.335,0,13.516l0,0c0-0.82,0.665-1.483,1.484-1.483h15.032C17.335,12.031,18,12.695,18,13.516L18,13.516z fillwhite/>            /svg>          /span>        /label>        div classtrigger>          a classpage-link href/index> Home /a>          a classpage-link href/about> About /a>          a classpage-link hrefhttps://bdtoolbox.teachable.com/courses> Courses /a>          a classpage-link href/gallery> Gallery /a>          a classpage-link hrefhttps://bdtoolbox.teachable.com/sign_in> Login /a>        /div>      /nav>/div>/header>main classpage-content aria-labelContent>      div classwrapper>        div classhome>div classBlueBlackground>  h1 stylefont-family:Times New Roman;font-size:50px;font-weight:700>Brain Dynamics Toolbox/h1>  p stylefont-size:18px;padding:0px 10px 25px 10px>Open software for simulating dynamical systems in neuroscience/p>  p>a hrefhttps://zenodo.org/records/10112763/files/bdtoolbox-2023a.zip?download1>button classbannerbutton stylepadding:18px; border-radius:26px; font-weight:700>Download Version 2023a/button>/a>/p>/div>p>br />The strong>Brain Dynamics Toolbox/strong> is open-source matlab software for simulating bespoke dynamical systems in neuroscience and beyond. Users define their system of equations as a custom matlab function. Interchangeable solvers and plotting tools can then be applied to that system with no additional programming effort./p>p>img srcassets/home/MorrisLecarHopf.gif width80% altThe Brain Dynamics Toolbox in action />/p>h2 iddifferential-equations>strong>Differential Equations/strong>/h2>p>The toolbox solves initial-value problems in Ordinary Differential Equations (ODEs), Delay Differential Equations (DDEs), Stochastic Differential Equations (SDEs) and Partial Differential Equations (PDEs)./p>p>img srcassets/home/FitzHughNagumoCode.png width80% altExample user-defined ODE />/p>h2 idcombinatorial-power>strong>Combinatorial Power/strong>/h2>p>The hub-and-spoke architecture allows unlimited combinations of display panels and numerical solvers to be applied to any model at run-time./p>p>img srcassets/home/IdeogramWebsite.png width80% altHub-and-Spoke Software Architecture />/p>h2 idprogrammable-controls>strong>Programmable Controls/strong>/h2>p>The graphical controls can be manipulated from the matlab workspace to semi-automate parameter surveys. Fully automated simulations can be scripted with the toolbox’s command-line tools./p>p>img srcassets/home/WorkspaceCommands.png width80% altWorkspace Commands />/p>h2 idofficial-handbook>strong>Official Handbook/strong>/h2>p>a href/assets/home/PaperbackCoverArt-2023.png>img srcassets/home/PaperbackCoverArt-2023.png width80% altHandbook for the Brain Dynamics Toolbox />/a>/p>p>a hrefhttps://github.com/bdtoolbox-org/bdtoolbox/releases/download/2023a/HandbookSample2023.pdf>button classbannerbutton stylewidth:40%; font-size:1.0rem;>Sample Chapter/button>/a>a hrefhttps://www.amazon.com/dp/0645066931>button classbannerbutton stylewidth:40%; font-size:1.0rem;>Shop on Amazon/button>/a>/p>h2 idonline-courses>strong>Online Courses/strong>/h2>p>a hrefhttps://bdtoolbox.teachable.com/p/toolbox-basics>img srcassets/home/ToolboxBasics.png width40% altToolbox Basics Course />/a>a hrefhttps://bdtoolbox.teachable.com/p/modellers-workshop>img srcassets/home/ModellersWorkshop.png width40% altModellers Workshop />/a>/p>h2 idcommunity-collection>strong>Community Collection/strong>/h2>p>Users can share their models on the a hrefhttps://zenodo.org/communities/bdtoolbox>Community Collection/a> hosted by Zenodo. All uploads are citeable./p>p>a hrefhttps://zenodo.org/communities/bdtoolbox>img srcassets/home/zenodo-gradient-200.png altZenodo />/a>/p>p>br />/p>div classBlueBlackground styletext-align:left; padding-top:12px; padding-left:75px; padding-right:75px>  h3 idfirst-prize-winner-dynamical-systems-2018-software-contest>First Prize Winner, Dynamical Systems 2018 Software Contest./h3>  p>Society for Industrial and Applied Mathematics (SIAM), Postdoc / Junior Faculty Category./p>  h3 idhonourable-mention-dynamical-systems-2019-software-tutorials-contest>Honourable Mention, Dynamical Systems 2019 Software Tutorials Contest./h3>  p>Society for Industrial and Applied Mathematics (SIAM), Postdoc / Junior Faculty Category./p>  h3 ida-fantastic-and-open-resource-for-all-interested-in-simulating-dynamical-systems-in-neuroscience>“A fantastic (and open) resource for all interested in simulating dynamical systems in neuroscience”/h3>  p>— Prof Olaf Sporns, Co-director of the Indiana University Network Science Institute./p>  h3 idthis-easy-to-use-toolbox-has-greatly-enhanced-the-modelling-work-we-do-in-our-lab>“This easy-to-use toolbox has greatly enhanced the modelling work we do in our lab”/h3>  p>— Prof Alex Fornito, Co-director of the Brain & Mental Health Research Hub, Monash University./p>  h3 idfrees-students-of-the-implementation-burden-and-allows-me-to-teach-the-dynamical-concepts>“Frees students of the implementation burden and allows me to teach the dynamical concepts”/h3>  p>— Dr Ben D Fulcher, Senior Lecturer in the School of Physics, The University of Sydney./p>  h3 idan-intuitive-and-insightful-platform-for-modelling-any-dynamical-system>“An intuitive and insightful platform for modelling any dynamical system”/h3>  p>— Dr Darragh Walsh, Postdoctoral Researcher, DCU Insight./p>  h3 ida-great-way-to-get-into-modeling-and-understanding-the-dynamics-you-thought-you-understood>“A great way to get into modeling and understanding the dynamics you thought you understood!”/h3>  p>— Dr Fran Hancock, Postdoctoral Researcher, Kings College London./p>  h3 idi-love-the-brain-dynamics-toolbox-very-intuitive-way-of-understanding-dynamical-systems-and-exploring-bifurcations>“I love the Brain Dynamics Toolbox. Very intuitive way of understanding dynamical systems and exploring bifurcations!”/h3>  p>— Caglar Cakan, PhD student, Neural Information Processing Group, Technische Universitat Berlin./p>/div>/div>      /div>    /main>footer classsite-footer h-card>  data classu-url href/>/data>  div classwrapper>    !-- h2 classfooter-heading>bdtoolbox.org/h2> -->    div classfooter-col-wrapper>      div classfooter-col footer-col-1>        ul classcontact-list>          li classp-name>Stewart Heitmann/li>li>a classu-email href/cdn-cgi/l/email-protection#335b565a475e525d5d735157475c5c5f515c4b1d5c4154>span class__cf_email__ data-cfemail5b333e322f363a35351b393f2f3434373934237534293c>email protected/span>/a>/li>/ul>      /div>      div classfooter-col footer-col-2>        !--ul classsocial-media-list>/ul>-->        ul classsocial-media-list>          li>a relme hrefhttps://mastodon.au/@bdtoolbox>svg classsvg-icon>use xlink:href/assets/minima-social-icons.svg#mastodon>/use>/svg> span classusername>bdtoolbox/span>/a>/li>          li>a hrefhttps://github.com/bdtoolbox-org>svg classsvg-icon>use xlink:href/assets/minima-social-icons.svg#github>/use>/svg> span classusername>bdtoolbox-org/span>/a>/li>        /ul>              /div>      div classfooter-col footer-col-3>        !-- p>Brain Dynamics Toolbox/p> -->        p> © bdtoolbox.org 2022/p>      /div>    /div>  /div>/footer>script data-cfasyncfalse src/cdn-cgi/scripts/5c5dd728/cloudflare-static/email-decode.min.js>/script>/body>/html>

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