getReferencingIDs: This function returns a vector of ids of all instances that...

In rBiopaxParser: Parses BioPax files and represents them in R

Description

This function takes an id and a biopax model as input. The id of every instance that references the supplied id is returned. If recursive == TRUE this function recurses through all referencing IDs of the referencing instances and so on. "onlyFollowProperties" limits the recursivness to only certain properties, for example follow only complexes or physicalEntities.

Usage

getReferencingIDs(biopax, id, recursive = TRUE, onlyFollowProperties = c())

Arguments

biopax	A biopax model
id	string. ID of the instance
recursive	logical
onlyFollowProperties	character vector

Value

Returns a character vector of IDs referencing the supplied id in the supplied biopax model.

Author(s)

Frank Kramer

Examples

 # load data
 data(biopaxexample)
 listComplexComponents(biopax, id="ex_m_100650")
 getReferencingIDs(biopax, id="ex_m_100650", recursive=FALSE)
 getReferencingIDs(biopax, id="ex_m_100650", recursive=TRUE)

Example output

Loading required package: data.table
           id name
1 ex_x_100637     
2  ex_x_25631     
3 ex_x_100647     
4 ex_x_100222     
5 ex_x_100649     
6 ex_x_100648     
[1] "ex_x_100650_5569"
[1] "ex_x_100650_5569"          "ex_i_100046_2_activator_1"
[3] "ex_i_100044"               "ex_i_100046_3_activator_1"
[5] "ex_i_100046_1_activator_1" "ex_i_100044_inhibitor_1"  
[7] "pid_p_100002_wntpathway"  

rBiopaxParser documentation built on Nov. 8, 2020, 8:21 p.m.