multiVolcano: plot volcano for easy comparision

In afitz-gmu/DGE-Analysis: Bioinformatics plots for various Visualization

Description

plot volcano for easy comparision

Usage

multiVolcano(
  DE,
  FoldChange = 0,
  cutoff = 0.05,
  DE.Only = TRUE,
  type.sig = "p",
  show.genes = FALSE,
  genes = NULL
)

Arguments

DE	list of Differentially Expressed Genes from Various methods.
FoldChange	is cuoff to mark genes as Differentially expressed
cutoff	is either pvalue of FDR cutoff for filtering
DE.Only	Logical, show unchanged genes or not default TRUE
type.sig	vector c('p', 'FDR') default 'p'
show.genes	logical weather to show genes as label
genes	vector tor of genes for which only volcano plot will be drawn

Examples

data("DEG")
DE.list<-list("edger" =dge_edger, "edgerql" = dge_edgerql,
                 "deseq2" = dge_deseq2, "voom" = dge_voom )
genes.list<-c("Gene7673", "Gene28034", "Gene38639")
multiVolcano(DE.list, FoldChange = 1.4, DE.Only = FALSE )
multiVolcano(DE.list, FoldChange = 1.4, DE.Only = FALSE , genes = genes.list)

afitz-gmu/DGE-Analysis documentation built on April 3, 2021, 2:39 a.m.