differentialCheck

A <code>propr</code> object. Optional.

Toggles whether to perform checks for the
second <code>propr</code> object.

forceBoth

Performs data checks when comparing two <code>propr</code> objects,
 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, this approach lacks statistical validity
when applied to relative data. This includes, for example, biological count data
generated by high-throughput RNA-sequencing, chromatin immunoprecipitation (ChIP),
ChIP-sequencing, Methyl-Capture sequencing, and other techniques. 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.

Thomas Quinn

propr

differentialCheck: Differential Proportionality Check

Description

Usage

Arguments