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index.html
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<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no" />
<meta name="description" content="" />
<meta name="author" content="" />
<title>Biomovies</title>
<!-- Favicon-->
<link rel="icon" type="image/x-icon" href="assets/icon.png" />
<!-- Font Awesome icons (free version)-->
<script src="https://use.fontawesome.com/releases/v6.1.0/js/all.js" crossorigin="anonymous"></script>
<!-- Google fonts-->
<link href="https://fonts.googleapis.com/css?family=Montserrat:400,700" rel="stylesheet" type="text/css" />
<link href="https://fonts.googleapis.com/css?family=Lato:400,700,400italic,700italic" rel="stylesheet" type="text/css" />
<!-- Core theme CSS (includes Bootstrap)-->
<link href="css/styles.css" rel="stylesheet" />
</head>
<body id="page-top">
<!-- Navigation-->
<nav class="navbar navbar-expand-lg bg-secondary text-uppercase fixed-top" id="mainNav">
<div class="container">
<a class="navbar-brand" href="#page-top">
<img src="assets/img/icon_shadow_white_mini.png" id="logo-navbar" class="display-none" alt="..." />
Biomovies
</a>
<button class="navbar-toggler text-uppercase font-weight-bold bg-primary text-white rounded" type="button" data-bs-toggle="collapse" data-bs-target="#navbarResponsive" aria-controls="navbarResponsive" aria-expanded="false" aria-label="Toggle navigation">
Menu
<i class="fas fa-bars"></i>
</button>
<div class="collapse navbar-collapse" id="navbarResponsive">
<ul class="navbar-nav ms-auto">
<li class="nav-item mx-0 mx-lg-1"><a class="nav-link py-3 px-0 px-lg-3 rounded" href="#gallery">Gallery</a></li>
<li class="nav-item mx-0 mx-lg-1"><a class="nav-link py-3 px-0 px-lg-3 rounded" href="#about">About</a></li>
<li class="nav-item mx-0 mx-lg-1"><a class="nav-link py-3 px-0 px-lg-3 rounded" href="#tutorials">Tutorials</a></li>
<li class="nav-item mx-0 mx-lg-1"><a class="nav-link py-3 px-0 px-lg-3 rounded" href="#help">Help</a></li>
<li class="nav-item mx-0 mx-lg-1"><a class="nav-link py-3 px-0 px-lg-3 rounded" href="#download">Download</a></li>
</ul>
</div>
</div>
</nav>
<!-- Masthead-->
<header class="masthead bg-primary text-white text-center">
<div class="container d-flex align-items-center flex-column">
<!-- Masthead Avatar Image-->
<img class="masthead-avatar mb-5" src="assets/img/icon_shadow_white.png" alt="..." />
<!-- Masthead Heading-->
<h1 class="masthead-heading text-uppercase mb-0">Biomovies</h1>
<!-- Icon Divider-->
<div class="divider-custom divider-light">
<div class="divider-custom-line"></div>
<div class="divider-custom-icon"><i class="fa-solid fa-film"></i></div>
<div class="divider-custom-line"></div>
</div>
<!-- Masthead Subheading-->
<p class="masthead-subheading font-weight-light mb-0">Cross-platform 3D biological structure video editor.</p>
<p class="mt-4" style="font-size: 16px; max-width: 750px;">This is a <strong>non-profit experimental</strong> software in its <strong>Beta</strong> version,
so be aware that some <strong>bugs</strong> can happen during the execution. Please <strong>save</strong> your projects as often as you
can and <a href="https://github.com/gbayarri/biomovies-app/issues/new?assignees=&labels=bug&projects=&template=bug_report.md&title=" class="white-link fw-bold" target="_blank">let us know</a> if some bug is found.</p>
<p class="masthead-minheading font-weight-light mb-0">v<span class="version"></span> (<span class="versionName"></span>)</p>
</div>
</header>
<!-- Gallery Section-->
<section class="page-section portfolio" id="gallery">
<div class="container">
<!-- Portfolio Section Heading-->
<h2 class="page-section-heading text-center text-uppercase text-secondary mb-0">Gallery</h2>
<!-- Icon Divider-->
<div class="divider-custom">
<div class="divider-custom-line"></div>
<div class="divider-custom-icon"><i class="fa-solid fa-images"></i></div>
<div class="divider-custom-line"></div>
</div>
<!-- Portfolio Grid Items-->
<div class="row justify-content-center">
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#galleryModal9">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">Virus envelope components</span></div>
</div>
<img class="img-fluid" src="assets/img/gallery/gallery09.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#galleryModal3">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">SARS-Cov-2 Spike RBD Opening</span></div>
</div>
<img class="img-fluid" src="assets/img/gallery/gallery03.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#galleryModal5">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">Protein-membrane GABA system</span></div>
</div>
<img class="img-fluid" src="assets/img/gallery/gallery05.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#galleryModal6">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">AK conformational transition</span></div>
</div>
<img class="img-fluid" src="assets/img/gallery/gallery06.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#galleryModal7">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">Unsupervised blind binding site prediction</span></div>
</div>
<img class="img-fluid" src="assets/img/gallery/gallery07.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#galleryModal8">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">Nucleosome H3 Histone protein</span></div>
</div>
<img class="img-fluid" src="assets/img/gallery/gallery08.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#galleryModal1">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">Triangular-shaped k-turns</span></div>
</div>
<img class="img-fluid" src="assets/img/gallery/gallery01.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#galleryModal2">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">Transcription Factor Binding site contacts</span></div>
</div>
<img class="img-fluid" src="assets/img/gallery/gallery02.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#galleryModal4">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">DNA fiber Montecarlo simulation</span></div>
</div>
<img class="img-fluid" src="assets/img/gallery/gallery04.png" alt="..." />
</div>
</div>
</div>
</div>
</section>
<!-- About Section-->
<section class="page-section bg-primary text-white mb-0" id="about">
<div class="container">
<!-- About Section Heading-->
<h2 class="page-section-heading text-center text-uppercase text-white">About</h2>
<!-- Icon Divider-->
<div class="divider-custom divider-light">
<div class="divider-custom-line"></div>
<div class="divider-custom-icon"><i class="fa-solid fa-circle-info"></i></div>
<div class="divider-custom-line"></div>
</div>
<!-- About Section Content-->
<div class="row">
<div class="col-lg-6 ms-auto">
<p class="lead">
<strong>Biomovies</strong> is a 3D biological structure <strong>video editor</strong>.
This <strong>cross-platform</strong>, open-source software allows the <strong>creation of movies</strong> starting from a 3D biological structure file.
Additionally, the application accepts <strong>trajectories</strong> coupled with its corresponding topology.
</p>
<p class="lead">
Thanks to its <strong>simplicity</strong> and the <strong>intuitive</strong> interface, users can build <strong>videos</strong> easily and quickly.
</p>
</div>
<div class="col-lg-6 me-auto">
<p class="lead">
The application allows the creation of <strong>low resolution</strong> and <strong>HD videos</strong> as well as <strong>animated images</strong>.
The projects can be <strong>saved</strong> for the sake of sharing or editing them later.
Templates can be <strong>exported</strong> too, allowing to apply the <strong>same edition</strong> to different biological structures.
</p>
<p class="lead">
The project provides a broad <a href="https://biomovies-documentation.readthedocs.io/en/latest" class="white-link" target="_blank">documentation</a> as well as <a href="#gallery" class="white-link">demonstration videos</a> and <a href="#tutorials" class="white-link">tutorials</a>.
</p>
</div>
<div class="col-lg-12">
<img class="img-fluid" src="assets/img/about/about.png" alt="..." />
</div>
</div>
</div>
</section>
<!-- Tutorials Section-->
<section class="page-section portfolio" id="tutorials">
<div class="container">
<!-- Portfolio Section Heading-->
<h2 class="page-section-heading text-center text-uppercase text-secondary mb-0">Tutorials</h2>
<!-- Icon Divider-->
<div class="divider-custom">
<div class="divider-custom-line"></div>
<div class="divider-custom-icon"><i class="fa-brands fa-youtube"></i></div>
<div class="divider-custom-line"></div>
</div>
<!-- Portfolio Grid Items-->
<div class="row justify-content-center">
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#tutorialsModal1">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">Create a basic movie</span></div>
</div>
<img class="img-fluid" src="assets/img/tutorials/tutorial01.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#tutorialsModal2">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">Create a movie</span></div>
</div>
<img class="img-fluid" src="assets/img/tutorials/tutorial02.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#tutorialsModal3">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">Create a movie with a trajectory</span></div>
</div>
<img class="img-fluid" src="assets/img/tutorials/tutorial03.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#tutorialsModal4">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">Playing with representations</span></div>
</div>
<img class="img-fluid" src="assets/img/tutorials/tutorial04.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#tutorialsModal5">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">Timeline menu at a glance</span></div>
</div>
<img class="img-fluid" src="assets/img/tutorials/tutorial05.png" alt="..." />
</div>
</div>
<div class="col-md-6 col-lg-4 mb-5">
<div class="portfolio-item mx-auto" data-bs-toggle="modal" data-bs-target="#tutorialsModal6">
<div class="portfolio-item-caption d-flex align-items-center justify-content-center h-100 w-100">
<div class="portfolio-item-caption-content text-center text-white"><i class="fas fa-plus fa-3x"></i><br><span class="minitit-gallery">Trajectory settings</span></div>
</div>
<img class="img-fluid" src="assets/img/tutorials/tutorial06.png" alt="..." />
</div>
</div>
</div>
</div>
</section>
<!-- Help Section-->
<section class="page-section bg-primary text-white mb-0" id="help">
<div class="container">
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How to <a href="https://biomovies-documentation.readthedocs.io/en/latest/installation.html" class="white-link" target="_blank">install the binary</a>?
Which are the <a href="https://biomovies-documentation.readthedocs.io/en/latest/introduction.html#software-hardware-requirements" class="white-link" target="_blank">hardware requirements</a>?
Is it easy to <a href="https://biomovies-documentation.readthedocs.io/en/latest/get-started.html#new-project" class="white-link" target="_blank">start a new project</a>?
And to <a href="https://biomovies-documentation.readthedocs.io/en/latest/create_videos.html" class="white-link" target="_blank">export the videos</a>?
How the <a href="https://biomovies-documentation.readthedocs.io/en/latest/interface.html#timeline" class="white-link" target="_blank">timeline</a> is working?
Can I <a href="https://biomovies-documentation.readthedocs.io/en/latest/interface.html#keyframes-clips" class="white-link" target="_blank">modify the representation</a> of the molecule?
How about the <a href="https://biomovies-documentation.readthedocs.io/en/latest/get-started.html#new-project-with-trajectory" class="white-link" target="_blank">trajectories</a>, can
I <a href="https://biomovies-documentation.readthedocs.io/en/latest/interface.html#trajectories" class="white-link" target="_blank">custom</a> their behaviour?
Does it really worth it to create a <a href="https://biomovies-documentation.readthedocs.io/en/latest/get-started.html#import-template" class="white-link" target="_blank">template</a>?
Where do I find the <a href="https://biomovies-documentation.readthedocs.io/en/latest/utilities.html#faqs" class="white-link" target="_blank">Frequently Asked Questions</a>,
the application <a href="https://biomovies-documentation.readthedocs.io/en/latest/utilities.html#shortcuts" class="white-link" target="_blank">shortcuts</a> or
some <a href="https://biomovies-documentation.readthedocs.io/en/latest/utilities.html#tips" class="white-link" target="_blank">tips</a> for getting the most out of the software?
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<h5 class="portfolio-modal-title text-secondary text-uppercase mb-0">Triangular-shaped k-turns</h5>
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<p class="my-4">Journey through the association of three two-k-turn units forming a triangular-shaped structure. PDB Code 5G4U.</p>
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<p class="my-4">View of Arginine/Lysine contacts in a selection of Transcription Factor binding sites. PDB Codes 1A66, 1A0A, 1CDW.</p>
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<p class="my-4">Simulation of the Receptor Binding Domain (RBD) opening from the SARS-Cov-2 Spike protein before infection. PDB Code 6VXX.</p>
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<p class="my-4">Coarse-Grained trajectory of a long DNA fiber with 4 proteins attached, obtained from MonteCarlo MCDNA simulations. Protein PDB Codes 1WTR, 3ZHM, 1BNZ, 1VFC.</p>
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<p class="my-4">Protein-membrane system for the human gamma-aminobutyric acid receptor, taken from MemProtMD database. PDB Code 4COF.</p>
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<p class="my-4">Conformational transition of the Adenylate Kinase enzyme, computed with the GOdMD tool. PDB Codes 1AKE (Closed conformation), 4AKE (Open conformation).</p>
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<p class="my-4">Binding site prediction from unsupervised blind docking using hamiltonian Replica Exchange technique. PDB Code 3TNE.</p>
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<p class="my-4">Highlight of the H3 Histone protein from the Nucleosome system. PDB Code 1KX5.</p>
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<p class="my-4">Dissection of a virus envelope molecule components, from its constituent proteins to the complete outermost layer. Venezuelan Equine Encephalitis virus (VEEV), PDB Code 7SFV.</p>
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<p class="my-4">In this tutorial we can see how easy is to <strong>create a movie</strong> with a transition between two clips with <strong>different representations and orientations</strong>. More <strong>information in the subtitles</strong> of the video, please <strong>enable</strong> them in case you have captions disabled in your <strong>personal settings</strong>.</p>
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<p class="my-4">In this tutorial we <strong>create a movie</strong> with different clips and representations with <strong>custom selections</strong>. We add different <strong>transitions</strong> such as transitions between clips and <strong>fades</strong> as well. More <strong>information in the subtitles</strong> of the video, please <strong>enable</strong> them in case you have captions disabled in your <strong>personal settings</strong>.</p>
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<p class="my-4">In this tutorial we <strong>create a movie</strong> with different clips and representations and custom selections providing a <strong>trajectory</strong> and its corresponding <strong>topology</strong>. We see in deep how to modify the <strong>trajectory parameters</strong>. More <strong>information in the subtitles</strong> of the video, please <strong>enable</strong> them in case you have captions disabled in your <strong>personal settings</strong>.</p>
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<p class="my-4">In this tutorial we review the different <strong>options</strong> provided for the sake of creating <strong>representations</strong>. As we can see, a <strong>distance based selection</strong> is easy to implement. More <strong>information in the subtitles</strong> of the video, please <strong>enable</strong> them in case you have captions disabled in your <strong>personal settings</strong>.</p>
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<h5 class="portfolio-modal-title text-secondary text-uppercase mb-0">See the Timeline menu options at a glance</h5>
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<p class="my-4">In this tutorial we see all the <strong>options</strong> given by the <strong>Timeline menu</strong>. More <strong>information in the subtitles</strong> of the video, please <strong>enable</strong> them in case you have captions disabled in your <strong>personal settings</strong>.</p>
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<p class="my-4">In this tutorial we see how to modify different <strong>trajectory settings</strong> such as <strong>range</strong>, <strong>step</strong>, <strong>timeout</strong> or <strong>play in reverse</strong>. Also it's shown how to <strong>fit a whole trajectory</strong> in a given <strong>clip</strong>. More <strong>information in the subtitles</strong> of the video, please <strong>enable</strong> them in case you have captions disabled in your <strong>personal settings</strong>.</p>
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