shortenGeneDescription {siggenes}R Documentation

Shorten the Gene Description

Description

Shorten 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

Author(s)

Holger Schwender, holger.schw@gmx.de

See Also

buildSNPannotation, link.genes, link.siggenes, sam2html


[Package siggenes version 1.16.0 Index]