scrime (version 1.3.5)

shortenGeneDescription: Shorten the Gene Description

Description

Shortens the entries of the column of a data frame containing the genes associated with the SNPs for which the data frame comprises annotations. Typically used in combination with, i.e.\ either within or after an application of, buildSNPannotation.

Usage

shortenGeneDescription(dat, colname = "Gene", max.length = 2, 
     sep = "///", add.ldots = TRUE)

Arguments

dat

a data frame. Typically, the output of buildSNPannotation.

colname

character string comprising the name of the column of dat containing the gene description.

max.length

integer specifying the maximum number of genes associated with the respective SNP that should be stored in the data frame. By default, the first two genes are retained. Shortened entries are marked by … at the end of the entries, when add.ldots = TRUE.

sep

character string specifying the separation symbol between the different genes.

add.ldots

should … be added at the entries which are shortened?

Value

The same data frame as dat with shortened entries in the column of dat named colname.

See Also

buildSNPannotation