scRNA

A dataset containing the counts of the 500 most varying transcripts in the mixtures of
5 cell lines in human liver (obtained with standard 10x scRNAseq Chromium protocol).

datasets

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

PLNmodels

Poisson Lognormal Models

Mahendra Mariadassou

Stéphane Robin

François Gindraud

Julie Aubert

Bastien Batardière

Giovanni Poggiato

Cole Trapnell

Maddy Duran

scRNA function

A data frame named 'scRNA' with 3918 rows (the cells) and 3 variables:<dl>
<dt>counts</dt>
<dd>a 500 trancript by 3918 count matrix</dd><dt>cell_line</dt>
<dd>factor, the cell line of the current row (among 5)</dd><dt>total_counts</dt>
<dd>Total number of reads for that cell</dd>...</dl>

Format

Single cell RNA-seq data — scRNA

A data frame named 'scRNA' with 3918 rows (the cells) and 3 variables:<dl>
<dt>counts</dt>
<dd>a 500 trancript by 3918 count matrix</dd>

<dt>cell_line</dt>
<dd>factor, the cell line of the current row (among 5)</dd>

<dt>total_counts</dt>
<dd>Total number of reads for that cell</dd>

...

</dl>

Single cell RNA-seq data

scRNA: Single cell RNA-seq data

Description

Usage

Arguments

Format