getAliasfromSTRINGIDs {pwOmics} | R Documentation

## Map alias names to STRING IDs of consensus graph.

### Description

Map alias names to STRING IDs of consensus graph.

### Usage

    getAliasfromSTRINGIDs(data_omics, ST_net, updown = FALSE, phospho = TRUE,
      consSTRINGIDs, tps, string_db)

### Arguments

`data_omics` | OmicsData object.
`ST_net` | steiner tree graph generated by SteinerTree_cons function.
`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.
`consSTRINGIDs` | first element of list generated by getConsensusSTRINGIDs function; a data.frame including the proteins to be considered as terminal nodes in Steiner tree with colnames ST_proteins and the corresponding STRING IDs in column 'STRING_id'.
`tps` | integer specifying current timepoint under consideration.
`string_db` | second element of list generated by getConsensusSTRINGIDs function; species table (for human) of STRING database.

### Value

igraph object with alias name annotation.

[Package pwOmics version 1.12.0 Index]