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