ephenoGetters: Getters for the epheno object:

In phenoTest: Tools to test association between gene expression and phenotype in a way that is efficient, structured, fast and scalable. We also provide tools to do GSEA (Gene set enrichment analysis) and copy number variation.

Description

getFc gets the fold changes. getHr gets the hazard ratios. getMeans gets the means. getPvals gets the p values. getPostProbs get the posterior probabilities. getSignif gets the pvalues or the posterior probabilities depending on the approach (frequentist or bayesian) that was used when the epheno object was created. getSummaryDif gets fold changes and hazard ratios. lofFcHr gets the fold changes and hazard ratios after log scaling. p.adjust.method gets the p value adjustment method that was used when creating the object. phenoClass returns a data.frame telling the class (ordinal, continuous, categorical or survival) of each phenotype. phenoNames gets the phenotype names. approach gets the approach that was used (either frequentist or bayesian).

Usage

getFc(x)
getHr(x)
getMeans(x)
getSignif(x)
getPvals(x)
getPostProbs(x)
getSummaryDif(x)
logFcHr(x)
p.adjust.method(x)
phenoClass(x)
phenoNames(x)
approach(x)

Arguments

x	epheno object

Author(s)

Evarist Planet

phenoTest documentation built on Nov. 8, 2020, 7:53 p.m.