dm_plotProportions

Matrix with rows corresponding to features and columns
corresponding to samples. Row names are used as labels on the plot.

counts

Factor that groups samples into conditions.

group

Matrix of estimated proportions with rows corresponding to
features and columns corresponding to conditions defined by factor
<code>group</code>. If <code>NULL</code>, nothing is plotted.

pi_full

Matrix of estimated proportions with rows corresponding to
features and one column. If <code>NULL</code>, nothing is plotted.

pi_null

Character vector with main title for the plot. If <code>NULL</code>,
nothing is plotted.

main

Character defining the type of the plot produced. Possible
values <code>"barplot"</code>, <code>"boxplot1"</code>, <code>"boxplot2"</code>,
<code>"lineplot"</code>, <code>"ribbonplot"</code>.

plot_type

Logical. Whether to plot the features ordered by their
expression.

order


Plot observed and/or estimated feature proportions.


The package provides two frameworks. One for the differential
splicing analysis between different conditions and one for the sQTL analysis.
Both are based on modeling the counts of genomic features (i.e., transcripts,
exons or exonic bins) with Dirichlet-multinomial distribution. The package also
makes available functions for visualization and exploration of the data and
results.

Malgorzata Nowicka

DRIMSeq

Differential splicing and sQTL analyses with Dirichlet-multinomial model
in RNA-Seq

dm_plotProportions function

Plot observed and/or estimated feature proportions.

dm_plotProportions: Plot feature proportions

Description

Usage

Arguments

Value