lr2glm

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

model.matrix

Arguments passed to <code>glm</code>.

This function builds a generalized linear model from
 log-ratio transformed data.

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

Calculating Proportionality Between Vectors of Compositional
Data

lr2glm: Build a Generalized Linear Model from CLR Data

Description

Usage

Arguments

Value