CRAN/E | PLNmodels

PLNmodels

Poisson Lognormal Models

Installation

About

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.

Citation PLNmodels citation info
pln-team.github.io/PLNmodels/
Bug report File report

Key Metrics

Version 1.2.0
R ≥ 3.4
Published 2024-03-05 53 days ago
Needs compilation? yes
License GPL (≥ 3)
CRAN checks PLNmodels results
Language en-US

Downloads

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Maintainer

Maintainer

Julien Chiquet

julien.chiquet@inrae.fr

Authors

Julien Chiquet

aut / cre

Mahendra Mariadassou

aut

Stéphane Robin

aut

François Gindraud

aut

Julie Aubert

ctb

Bastien Batardière

ctb

Giovanni Poggiato

ctb

Cole Trapnell

ctb

Maddy Duran

ctb

Material

NEWS
Reference manual
Package source

Vignettes

import
Analyzing multivariate count data with the Poisson log-normal model
Supervized classification of multivariate count table with the Poisson discriminant Analysis
Dimension reduction of multivariate count data with PLN-PCA
Clustering of multivariate count data with PLN-mixture
Sparse structure estimation for multivariate count data with PLN-network
Description of the Trichoptera data set

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

PLNmodels archive

Depends

R ≥ 3.4

Imports

methods
stats
MASS
future
future.apply
R6
glassoFast
pscl
Matrix
Rcpp
nloptr
igraph
grid
gridExtra
dplyr
tidyr
purrr
ggplot2
corrplot
magrittr
torch
rlang

Suggests

knitr
rmarkdown
testthat
pkgdown
spelling
factoextra

LinkingTo

Rcpp
RcppArmadillo
nloptr