Description Usage Arguments Value
View source: R/pwOmics_consensus_analysis.R
Map alias names to STRING IDs of consensus graph.
1 2 | getAliasfromSTRINGIDs(data_omics, ST_net, updown = FALSE, phospho = TRUE,
consSTRINGIDs, tps, string_db)
|
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. |
igraph object with alias name annotation.
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