getAliasfromSTRINGIDs

data_omics

steiner tree graph generated by SteinerTree_cons function.

ST_net

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'.

consSTRINGIDs

integer specifying current timepoint under consideration.

second element of list generated by getConsensusSTRINGIDs
function; species table (for human) of STRING database.

string_db


Map alias names to STRING IDs of consensus graph.


manip

pwOmics performs pathway-based level-specific data
comparison of matching omics data sets based on pre-analysed
user-specified lists of differential genes/transcripts and
proteins. A separate downstream analysis of proteomic data
including pathway identification and enrichment analysis,
transcription factor identification and target gene
identification is opposed to the upstream analysis starting
with gene or transcript information as basis for identification
of upstream transcription factors and regulators. The
cross-platform comparative analysis allows for comprehensive
analysis of single time point experiments and time-series
experiments by providing static and dynamic analysis tools for
data integration.

getAliasfromSTRINGIDs: Map alias names to STRING IDs of consensus graph.

Description

Usage

Arguments

Value