qtheta

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

propd

A p-value at which to calculate a theta cutoff.

pval

A boolean. Toggles whether to calculate the theta
cutoff for an FDR-adjusted p-value.

This function uses the F distribution to calculate a cutoff of
 theta for a p-value given by the <code>pval</code> argument.

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

qtheta: Calculate a theta Cutoff

Description

Usage

Arguments

Value

Details