plotCheck

A <code>propr</code> or <code>propd</code> object.

A logical scalar. Set to <code>FALSE</code> to disable
the courtesy prompt when working with big data.

prompt

A logical scalar. Set to <code>TRUE</code> to produce
a dynamic plot using the <code>plotly</code> package.

plotly

Toggles whether to perform checks for an
"index-naive" plot function.

indexNaive

Performs data checks before plotting, triggering messages
 or errors when appropriate. For back-end use only.

The bioinformatic evaluation of gene co-expression often begins with
correlation-based analyses. However, correlation lacks validity when
applied to relative data, including count data generated by next-generation
sequencing. This package implements several metrics for proportionality, including
phi [Lovell et al (2015) <DOI:10.1371/journal.pcbi.1004075>] and
rho [Erb and Notredame (2016) <DOI:10.1007/s12064-015-0220-8>]. This package also
implements several metrics for differential proportionality. Unlike correlation,
these measures give the same result for both relative and absolute data.

plotCheck: Plot Check

Description

Usage

Arguments

Value