grandR (version 0.2.6)

GeneInfo: Get the gene annotation table or add additional columns to it

Description

The gene annotation table contains meta information for the rows of a grandR object. When loaded from the GRAND-SLAM output, this this contains gene ids, gene symbols, the transcript length and the type.

Usage

GeneInfo(data, column = NULL, value = NULL)
GeneInfo(data, column) <- value

Value

Either the gene annotation table or a new grandR object having an updated gene annotation table

Arguments

data

A grandR object

column

The name of the additional annotation column

value

The additional annotation per gene

Details

New columns can be added either by data<-GeneInfo(data,name,values) or by GeneInfo(data,name)<-values.

See Also

Genes, Coldata, ReadGRAND

Examples

sars <- ReadGRAND(system.file("extdata", "sars.tsv.gz", package = "grandR"),
                  design=c("Cell",Design$dur.4sU,Design$Replicate))

head(GeneInfo(sars))
GeneInfo(sars,"LengthCategory")<-cut(GeneInfo(sars)$Length,c(0,1500,2500,Inf),
                                          labels=c("Short","Medium","Long"))
table(GeneInfo(sars)$LengthCategory)