getConsensusSTRINGIDs: Get consensus graph in STRING IDs.

In MarenS2/pwOmics_maren: Pathway-based data integration of omics data

Description

Get consensus graph in STRING IDs.

Usage

getConsensusSTRINGIDs(data_omics, tps, string_db, updown = FALSE,
  phospho = TRUE)

Arguments

data_omics	OmicsData object.
tps	integer specifying current timepoint under consideration.
string_db	STRING_db object.
updown	boolean value; TRUE in case up- and downregulation should be checked individually for intersection. Type of checking is defined with parameter 'phospho'.
phospho	boolean value; TRUE in case up- and downregulation should be checked based on provided downstream phosphoprotein influence from identifyPR function; FALSE in case up- and downregulation should be checked for without phosphoprotein database knowledge. Default is TRUE.

Value

igraph object consensus graph with STRING IDs (only including proteins and transcription factors).

MarenS2/pwOmics_maren documentation built on May 6, 2019, 3:27 p.m.