Sub-Pathway Mining Software

Documentation for package ‘SPMS’ version 2.0

SPMS-package	Sub-Pathway Miner Software
broad_OnePictureShowing	To show one picture in R-gui.
broad_subPathwayGraph	To save the graphicl result in pdf format.
broad_subPathwayMinner	According to the broad traverse datas to mine su-bpathway.
broad_zhenghe	To redundancy the text result.
deleteAll	deleteAll
depth_OnePictureShowing	To show one picture in R-gui.
depth_subPathwayGraph	To save the graphicl result in pdf format.
depth_subPathwayMinner	According to the depth traverse datas to mine sub-pathway.
depth_zhenghe	To redundancy the text result.
ErgodicPathShowing	To show ergodic path.
fPathway	Obtain the number of pathway in one species.
getAllSubpathway	To get all sub-pathways' subgraphs.
getData	Obtain datas.
getNodesNum	The whole nodes number of the species.
ImageSize	Pathway picture size
inputInterestGene	Input interestGene.
mineSubpathway	Use this funtion to mine sub-pathway.
networkShowing_geneSymbol	To show the network in R-gui.
networkShowing_hsa	To show the network in R-gui.
pathwayName	Pathway name
setPath	To set path which used to save all datas and results.
SPMS	Sub-Pathway Miner Software
txtResultShowing	To show the text result in R-gui.