GOanalysis: LONGO GO analysis

In BioHPC/LONGO: Long gene expression as a metric for neuronal identity

LONGO GO analysis

Description

This is an internal function used to do the GO analysis.

Usage

GOanalysis(analyzeData, biomaRt.go.df, speciesEnsembl, repNames, GODomain,
  GOScoring, GoGraphing, sigCount = 15, sigCutOff = 0.01,
  textScale = 0.15)

Arguments

analyzeData	dataframe to be analyzed
biomaRt.go.df	dataframe of gene id to GO term
speciesEnsembl	Ensembl used to call the bioMart if biomaRt.df is null
repNames	Order/naming of the replications
GODomain	Option for what GO domain to use for the analysis
GOScoring	Option for what method should be used for the GO scoring
GoGraphing	Option for what method should be used for the GO graphig
sigCount	Option for the number of significant terms are needed in the nodes to count
sigCutOff	Option for the p value to mark significance
textScale	Option to alter text size in GO graph

Value

returns the GO data

BioHPC/LONGO documentation built on Oct. 31, 2024, 4:43 a.m.