map: map

In STRINGdb: STRINGdb (Search Tool for the Retrieval of Interacting proteins database)

Description

Maps the gene identifiers of the input dataframe to STRING identifiers. It returns the input dataframe with the "STRING_id" additional column.

Usage

## S4 method for signature 'STRINGdb'
map(my_data_frame, my_data_frame_id_col_names, takeFirst=TRUE, removeUnmappedRows=FALSE, quiet=FALSE)

Arguments

my_data_frame	data frame provided as input.
my_data_frame_id_col_names	vector contatining the names of the columns of "my_data_frame" that have to be used for the mapping.
takeFirst	boolean indicating what to do in case of multiple STRING proteins that map to the same name. If TRUE, only the first of those is taken. Otherwise all of them are used. (default TRUE)
removeUnmappedRows	remove the rows that cannot be mapped to STRING (by default those lines are left and their STRING_id is set to NA).
quiet	Setting this variable to TRUE we can avoid printing the warning relative to the unmapped values.

Value

Returns the dataframe that is given in input with the "STRING_id" additional column.

Author(s)

Andrea Franceschini

STRINGdb documentation built on March 10, 2021, 2 a.m.