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<!DOCTYPE html>
<html lang="en" class="js csstransforms3d">
<head>
<meta charset="utf-8">
<meta name="viewport" content="width=device-width, initial-scale=1.0">
<meta name="generator" content="Hugo 0.54.0" />
<meta name="description" content="Dynverse">
<meta name="author" content="Wouter Saelens and Robrecht Cannoodt">
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<title> :: dynverse</title>
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</div>
<div class="highlightable">
<ul class="topics">
<li data-nav-id="/users/" title="Method users" class="dd-item
menu-section
"
>
<a href="./users/">
Method users
<img src="./images/dyno/dyno1.png" alt="logo" class="menu-logo zoom ">
</a>
<ul style="display:block;">
<li data-nav-id="/users/1-installation/" title="Installation" class="dd-item ">
<a href="./users/1-installation/">
Installation
</a>
</li>
<li data-nav-id="/users/2-quick_start/" title="Quick start" class="dd-item ">
<a href="./users/2-quick_start/">
Quick start
</a>
</li>
<li data-nav-id="/users/3-user-guide/" title="User guide" class="dd-item
menu-subsection
">
<a href="./users/3-user-guide/">
User guide
</a>
<ul>
<li data-nav-id="/users/3-user-guide/1-preparing/" title="Preparing the data" class="dd-item ">
<a href="./users/3-user-guide/1-preparing/">
Preparing the data
</a>
</li>
<li data-nav-id="/users/3-user-guide/2-guidelines/" title="Selecting the best methods for a dataset" class="dd-item ">
<a href="./users/3-user-guide/2-guidelines/">
Selecting the best methods for a dataset
</a>
</li>
<li data-nav-id="/users/3-user-guide/3-running/" title="Inferring trajectories" class="dd-item ">
<a href="./users/3-user-guide/3-running/">
Inferring trajectories
</a>
</li>
<li data-nav-id="/users/3-user-guide/4-visualisation/" title="Visualising the trajectory" class="dd-item ">
<a href="./users/3-user-guide/4-visualisation/">
Visualising the trajectory
</a>
</li>
<li data-nav-id="/users/3-user-guide/5-adapting/" title="Adapting the trajectory" class="dd-item ">
<a href="./users/3-user-guide/5-adapting/">
Adapting the trajectory
</a>
</li>
<li data-nav-id="/users/3-user-guide/6-tde/" title="Trajectory differentially expression" class="dd-item ">
<a href="./users/3-user-guide/6-tde/">
Trajectory differentially expression
</a>
</li>
</ul>
</li>
</ul>
</li>
<li data-nav-id="/developers/" title="Method developers" class="dd-item
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<a href="./developers/">
Method developers
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</a>
<ul style="display:block;">
<li data-nav-id="/developers/creating-ti-method/" title="Creating a TI method" class="dd-item
menu-subsection
">
<a href="./developers/creating-ti-method/">
Creating a TI method
</a>
<ul>
<li data-nav-id="/developers/creating-ti-method/create_ti_method_wrappers/" title="Creating a trajectory" class="dd-item ">
<a href="./developers/creating-ti-method/create_ti_method_wrappers/">
Creating a trajectory
</a>
</li>
<li data-nav-id="/developers/creating-ti-method/create_ti_method_r/" title="Wrapping in R" class="dd-item ">
<a href="./developers/creating-ti-method/create_ti_method_r/">
Wrapping in R
</a>
</li>
<li data-nav-id="/developers/creating-ti-method/create_ti_method_script/" title="Wrapper script" class="dd-item ">
<a href="./developers/creating-ti-method/create_ti_method_script/">
Wrapper script
</a>
</li>
<li data-nav-id="/developers/creating-ti-method/create_ti_method_container/" title="Containerised wrapping" class="dd-item ">
<a href="./developers/creating-ti-method/create_ti_method_container/">
Containerised wrapping
</a>
</li>
</ul>
</li>
<li data-nav-id="/developers/evaluating-ti-method/" title="Evaluating a TI method" class="dd-item
menu-subsection
">
<a href="./developers/evaluating-ti-method/">
Evaluating a TI method
</a>
</li>
</ul>
</li>
<li data-nav-id="/reference/" title="Reference" class="dd-item
menu-section
"
>
<a href="./reference/">
Reference
</a>
<ul style="display:block;">
<li data-nav-id="/reference/dynwrap/" title="" class="dd-item
menu-subsection
">
<a href="./reference/dynwrap/">
dynwrap
</a>
<ul>
<li data-nav-id="/reference/dynwrap/create_trajectory/" title="dynwrap :: Creating a trajectory" class="dd-item
menu-item
">
<a href="./reference/dynwrap/create_trajectory/">
Creating a trajectory
</a>
<ul>
</ul>
</li>
<li data-nav-id="/reference/dynwrap/adapt_trajectory/" title="dynwrap :: Adapting a trajectory model" class="dd-item
menu-item
">
<a href="./reference/dynwrap/adapt_trajectory/">
Adapting a trajectory model
</a>
<ul>
</ul>
</li>
<li data-nav-id="/reference/dynwrap/derive_trajectory/" title="dynwrap :: Calculations from a trajectory" class="dd-item
menu-item
">
<a href="./reference/dynwrap/derive_trajectory/">
Calculations from a trajectory
</a>
<ul>
</ul>
</li>
<li data-nav-id="/reference/dynwrap/create_ti_method/" title="dynwrap :: Creating a TI method" class="dd-item
menu-item
">
<a href="./reference/dynwrap/create_ti_method/">
Creating a TI method
</a>
<ul>
</ul>
</li>
<li data-nav-id="/reference/dynwrap/infer_trajectory/" title="dynwrap :: Running a TI method" class="dd-item
menu-item
">
<a href="./reference/dynwrap/infer_trajectory/">
Running a TI method
</a>
<ul>
</ul>
</li>
<li data-nav-id="/reference/dynwrap/other/" title="dynwrap :: Other" class="dd-item
menu-item
">
<a href="./reference/dynwrap/other/">
Other
</a>
<ul>
</ul>
</li>
</ul>
</li>
<li data-nav-id="/reference/dynplot/" title="" class="dd-item
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">
<a href="./reference/dynplot/">
dynplot
</a>
<ul>
<li data-nav-id="/reference/dynplot/plot_trajectory/" title="dynplot :: Plot a trajectory" class="dd-item