addLinks: Adding links to columns of a data.frame

In gCMAPWeb: A web interface for gene-set enrichment analyses

Description

This function identifies column pairs from a data.frame that differ only in a string suffix (default: .url). The column with the suffix is used to add http href tags to the other column and is then removed.

Usage

addLinks(df, pattern = ".url$", swap.colnames = getOption("swap.colnames",
  default = list(padj = "FDR", nFound = "Genes")))

Arguments

df	data.frame, must contain both target and url columns
pattern	character, the suffix linking target and url columns. Default=c('.url')
swap.colnames	list, containing alternative names for CMAPResults columns.

Details

To annotate columns with links to other urls, the urls must be included in the data.frame in a separate column matching the target column name but carrying the additional suffix in the column name. For example, to add links to the 'id' column, an additional id.url column can be used. Multiple columns can be processed simultaneously, if each of them has a matching url column.

Value

Data frame with href html tags in the target column(s)

Author(s)

Thomas Sandmann

gCMAPWeb documentation built on April 28, 2020, 8:23 p.m.