# Topology-based pathway analysis of RNA-seq data

## Documentation for package ‘ToPASeq’ version 1.20.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

CePa | Centrlity-based Pathway entrichment (CePa)
clipper | clipper
convertIdentifiersByVector | Convert pathway identifiers
DEGraph | Differential Expression of Graph (DEGraph)
degtable | Functions to extract and display results
degtable.topResult | Functions to extract and display results
prs | Pathway regulation score (PRS)
prsWeights | Pathway regulation score (PRS)
PRS_wrapper | Pathway Regulation Score (PRS)
PWEA | PathWay Enrichment Analysis (PWEA)
res | Functions to extract and display results
res.topResult | Functions to extract and display results
SPIA | Signaling Pathway Impact Analysis (SPIA)
TAPPA | Topological Analysis of Pathway Phenotype Association (TAPPA)
topo.sig | Functions to extract and display results
topo.sig.topResult | Functions to extract and display results
TopologyGSA | Gene set analysis exploiting the topology of a pathway (TopologyGSA)