lr2cor

A data.frame. A log-ratio transformed counts matrix.

A numeric vector of a continuous variable.

conditions

Arguments passed to <code>cor.test</code>.

This function correlates each log-ratio transformed
 feature vector with a continuous numeric variable.

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.

Thomas Quinn

propr

lr2cor: Correlate CLR Data with a Continuous Measurement

Description

Usage

Arguments

Value