IncludeNonDEgenes_InClustering: IncludeNonDEgenes_InClustering

In askomics/askoR: Differential Expression Analysis using 'edgeR'

IncludeNonDEgenes_InClustering

Description

Add a cluster with the genes that are not DE in the analysis to the ClustAndGO analysis

• Graphs of clusters (heatmap and boxplot) created through ClustAndGO function with an additionnal cluster représenting NON DE genes

• Expression profile of NON DE genes

• GO enrichments on NON DE genes

• Files with gene description of each significant enriched GO

Usage

IncludeNonDEgenes_InClustering(data, asko_norm, resDEG, parameters, clustering)

Arguments

data	list contain all data and metadata (DGEList, samples descritions, contrast, design and annotations)
asko_norm	large DGEList with normalized counts by GEnorm function.
resDEG	data frame contains for each contrast the significance expression (1/0/-1) for all genes coming from DEanalysis function.
parameters	list that contains all arguments charged in Asko_start.
clustering	data frame with clusters of each gene produced by ClustAndGO function

Value

none

Note

Remember to read the Wiki section in https://github.com/askomics/askoR/wiki

Examples

## Not run: 
   IncludeNonDEgenes_InClustering(data, asko_norm, resDEG, parameters, clustering)

## End(Not run)

askomics/askoR documentation built on Jan. 17, 2025, 6:23 p.m.