# Flexible Identification of Phenotype-Specific Subpathways

## Documentation for package ‘psSubpathway’ version 0.1.3

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

## Help Pages

compute_rank_score | psSubpathway internal functions
DCgenematrix | The variables in the environment include subpathway list data, information of subpathway,an expression profile and a example result
DClabes.cls | The variables in the environment include subpathway list data, information of subpathway,an expression profile and a example result
DCSA | Dynamic Changed Subpathway Analysis (DCSA)
DCspwresult | The variables in the environment include subpathway list data, information of subpathway,an expression profile and a example result
envData | The variables in the environment include subpathway list data, information of subpathway,an expression profile and a example result
FastSEAscore | psSubpathway internal functions
getgenedensity | psSubpathway internal functions
isPackageLoaded | psSubpathway internal functions
ks_test_m | psSubpathway internal functions
plotheatmap | Plot a heatmap
plotSpwACmap | Plot subpathway activity change map
plotSpwNetmap | Polt a subpathway network map
plotSpwPSheatmap | Plot subpathway phenotypic significant heat map
plotSubSEScurve | Plot subtype set sample enrichment score curve graph
ReadClsFile | psSubpathway internal functions
rndWalk | psSubpathway internal functions
SEAscore | psSubpathway internal functions
spwentrezidlist | The variables in the environment include subpathway list data, information of subpathway,an expression profile and a example result
spwnetworkdata | The variables in the environment include subpathway list data, information of subpathway,an expression profile and a example result
spwsymbollist | The variables in the environment include subpathway list data, information of subpathway,an expression profile and a example result
spwtitle | The variables in the environment include subpathway list data, information of subpathway,an expression profile and a example result
ssgsea | psSubpathway internal functions
Subgenematrix | The variables in the environment include subpathway list data, information of subpathway,an expression profile and a example result
Sublabels.cls | The variables in the environment include subpathway list data, information of subpathway,an expression profile and a example result
SubSEA | Subtype Set Enrichment Analysis (SubSEA)
Subspwresult | The variables in the environment include subpathway list data, information of subpathway,an expression profile and a example result