PLNmodels

PLNmodels-package

<img src="figures/logo.png?package=PLNmodels&version=1.2.2" style="float: right" alt="logo" width="120">
The Poisson-lognormal model and variants (Chiquet, Mariadassou and Robin, 2021 tools:::Rd_expr_doi("10.3389/fevo.2021.588292")) can be used for a variety of multivariate problems when count data are at play, including principal component analysis for count data, discriminant analysis, model-based clustering and network inference. Implements variational algorithms to fit such models accompanied with a set of functions for visualization and diagnostic.

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The Poisson-lognormal model and variants (Chiquet,
Mariadassou and Robin, 2021 <doi:10.3389/fevo.2021.588292>) can be
used for a variety of multivariate problems when count data are at
play, including principal component analysis for count data,
discriminant analysis, model-based clustering and network inference.
Implements variational algorithms to fit such models accompanied with
a set of functions for visualization and diagnostic.

Julien Chiquet

Poisson Lognormal Models

Mahendra Mariadassou

Stéphane Robin

François Gindraud

Julie Aubert

Bastien Batardière

Giovanni Poggiato

Cole Trapnell

Maddy Duran

PLNmodels-package function

Maintainer: Julien Chiquet <a href="/link/julien.chiquet%40inrae.fr?package=PLNmodels&version=1.2.2" data-mini-rdoc="PLNmodels::julien.chiquet@inrae.fr">julien.chiquet@inrae.fr</a> (<a href="https://orcid.org/0000-0002-3629-3429">ORCID</a>)
Authors:<ul>
<li>Mahendra Mariadassou <a href="/link/mahendra.mariadassou%40inrae.fr?package=PLNmodels&version=1.2.2" data-mini-rdoc="PLNmodels::mahendra.mariadassou@inrae.fr">mahendra.mariadassou@inrae.fr</a> (<a href="https://orcid.org/0000-0003-2986-354X">ORCID</a>)</li>
<li>Stéphane Robin <a href="/link/stephane.robin%40inrae.fr?package=PLNmodels&version=1.2.2" data-mini-rdoc="PLNmodels::stephane.robin@inrae.fr">stephane.robin@inrae.fr</a></li>
<li>François Gindraud <a href="/link/francois.gindraud%40gmail.com?package=PLNmodels&version=1.2.2" data-mini-rdoc="PLNmodels::francois.gindraud@gmail.com">francois.gindraud@gmail.com</a></li>
</ul>Other contributors:<ul>
<li>Julie Aubert <a href="/link/julie.aubert%40inrae.fr?package=PLNmodels&version=1.2.2" data-mini-rdoc="PLNmodels::julie.aubert@inrae.fr">julie.aubert@inrae.fr</a> [contributor]</li>
<li>Bastien Batardière <a href="/link/bastien.batardiere%40inrae.fr?package=PLNmodels&version=1.2.2" data-mini-rdoc="PLNmodels::bastien.batardiere@inrae.fr">bastien.batardiere@inrae.fr</a> [contributor]</li>
<li>Giovanni Poggiato <a href="/link/giov.poggiato%40gmail.com?package=PLNmodels&version=1.2.2" data-mini-rdoc="PLNmodels::giov.poggiato@gmail.com">giov.poggiato@gmail.com</a> [contributor]</li>
<li>Cole Trapnell <a href="/link/coletrap%40uw.edu?package=PLNmodels&version=1.2.2" data-mini-rdoc="PLNmodels::coletrap@uw.edu">coletrap@uw.edu</a> [contributor]</li>
<li>Maddy Duran <a href="/link/duran%40uw.edu?package=PLNmodels&version=1.2.2" data-mini-rdoc="PLNmodels::duran@uw.edu">duran@uw.edu</a> [contributor]</li>
</ul>

Author

<img src='figures/logo.png' style='float: right' alt='logo' width='120' />
The Poisson-lognormal model and variants (Chiquet, Mariadassou and Robin, 2021 tools:::Rd_expr_doi("10.3389/fevo.2021.588292")) can be used for a variety of multivariate problems when count data are at play, including principal component analysis for count data, discriminant analysis, model-based clustering and network inference. Implements variational algorithms to fit such models accompanied with a set of functions for visualization and diagnostic.

PLNmodels: Poisson Lognormal Models — PLNmodels-package

Maintainer: Julien Chiquet <a href='mailto:julien.chiquet@inrae.fr'>julien.chiquet@inrae.fr</a> (<a href='https://orcid.org/0000-0002-3629-3429'>ORCID</a>)
Authors:<ul>
<li>Mahendra Mariadassou <a href='mailto:mahendra.mariadassou@inrae.fr'>mahendra.mariadassou@inrae.fr</a> (<a href='https://orcid.org/0000-0003-2986-354X'>ORCID</a>)</li>
<li>Stéphane Robin <a href='mailto:stephane.robin@inrae.fr'>stephane.robin@inrae.fr</a></li>
<li>François Gindraud <a href='mailto:francois.gindraud@gmail.com'>francois.gindraud@gmail.com</a></li>
</ul>

Other contributors:<ul>
<li>Julie Aubert <a href='mailto:julie.aubert@inrae.fr'>julie.aubert@inrae.fr</a> [contributor]</li>
<li>Bastien Batardière <a href='mailto:bastien.batardiere@inrae.fr'>bastien.batardiere@inrae.fr</a> [contributor]</li>
<li>Giovanni Poggiato <a href='mailto:giov.poggiato@gmail.com'>giov.poggiato@gmail.com</a> [contributor]</li>
<li>Cole Trapnell <a href='mailto:coletrap@uw.edu'>coletrap@uw.edu</a> [contributor]</li>
<li>Maddy Duran <a href='mailto:duran@uw.edu'>duran@uw.edu</a> [contributor]</li>
</ul>

PLNmodels-package: PLNmodels: Poisson Lognormal Models

Description

Arguments

Author

See Also