loadPWs

vector indicating with which pathway database the
pathways should be determined; possible choices
are "biocarta", "kegg", "nci", "reactome".

pwdatabases

integer indicating biopax level of pathway database
information to be retrieved.

biopax_level


This function loads the pathway information from pathway databases.
Needed in the identifyPWs function.


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.

Astrid Wachter

pwOmics

Pathway-based data integration of omics data

loadPWs function

This function loads the pathway information from pathway databases.
Needed in the identifyPWs function.

loadPWs: Load pathway database information.

Description

Usage

Arguments

Value