annoXMouseHuman: Function for annotating and cross annotating top table of...

Description Usage Arguments Examples

Description

This function does cross annotation of a top table of mouse DEGs to human gene Symbols, making use of biomaRt

Usage

1
2
3
4
5
annoXMouseHuman(top = top.A.flakVSflg, mouse = "mmusculus_gene_ensembl",
  human = "hsapiens_gene_ensembl", mouse.attr.in = c("ensembl_gene_id",
  "mgi_symbol"), human.attr.in = c("ensembl_gene_id", "hgnc_symbol",
  "wikigene_description"), top.tab = TRUE,
  AnnPkg = "mogene21sttranscriptcluster.db")

Arguments

top

Top table as derived by calling the function toptable on an ebayes fit object

mouse

The mouse mart to use in the biomaRt function

human

The human mart to use in the biomaRt function

mouse.attr.in

Mouse attributes to use from biomaRt.

human.attr.in

Human attributes to use from biomaRt.

top.tab

TRUE/FALSE if "top" is actually a top table

AnnPkg

Mouse eset annotation package. So which package was used to annotate the mouse expression set.

Examples

1
annoXMouseHuman(top=top.A.flakVSflg)

mssm-msf-2019/BiostatsALL documentation built on May 22, 2019, 12:16 p.m.