cutoffAnn | Get the statistically significantly enriched pathways |
gene2ec | The environment variable of the system |
gene2ko | The environment variable of the system |
gene2path | The environment variable of the system |
generateNetwork | Generate disease-metabolic subpathway networks |
getAexample | Get a set of genes |
getAnn | Annotate a set of genes to pathways or sub-pathways based on enzyme commission (EC) |
getDefaultBackground | Get the default background genes |
getDefaultGraph | Get relationship between KEGG pathways and genes |
getDefaultKOPathway | Get an identifier list of the default pathways based on KEGG Orthology (KO) |
getDefaultKOUndirectedGraph | Get the default undirected graph based on KEGG Orthology |
getDefaultMetabolicPathway | Get an identifier list of the default metabolic pathways |
getDefaultUndirectedGraph | Get the default undirected graph based onenzyme commission (EC) numbers |
getEnzymeFromGene | Map between two types of identifiers |
getEnzymeFromKGene | Map between two types of identifiers |
getGeneFromEnzyme | Map between two types of identifiers |
getGeneFromKGene | Map between two types of identifiers |
getGeneFromKO | Map between two types of identifiers |
getGeneFromPathway | Map between two types of identifiers |
getKcsmpAnn | Get the sub-pathways annotation and identification of metabolic network |
getKcSubGraph | Mine sub-pathways |
getKGeneFromEnzyme | Map between two types of identifiers |
getKGeneFromGene | Map between two types of identifiers |
getKGeneFromKO | Map between two types of identifiers |
getKGeneFromPathway | Map between two types of identifiers |
getKOAnn | Annotate a set of genes to sub-pathways by using KEGG Orthology (KO) |
getKOFromGene | Map between two types of identifiers |
getKOFromKGene | Map between two types of identifiers |
getMpAnn | get annotation informations of metabolic pathways |
getOrgAndIdType | Get the type of organism and identifier in the current environment variable |
getPathwayFromGene | Map between two types of identifiers |
getPathwayFromKGene | Map between two types of identifiers |
getPIdFromPName | Map between two types of identifiers |
getPNameFromPId | Map between two types of identifiers |
gotoKEGG | Visualize pathways or sub-pathways through linking to the KEGG web site |
ke2g | The environment variable of the system |
keggpathid2name | The environment variable of the system |
KOuGraph | The environment variable of the system |
kpidList | The environment variable of the system |
loadKe2g | ke2g environment function |
map_title | The environment variable of the system |
mpidList | The environment variable of the system |
plotAnn | Visualize pathways or sub-pathways based on enzyme commission (EC) numbers |
plotKOAnn | Visualize pathways or sub-pathways based on KEGG Orthology (KO) |
printAnn | Print the results of pathway annotation and identification |
saveKe2g | ke2g environment function |
uGraph | The environment variable of the system |
updateGraphs | Update graphs constructed from KEGG metabolic pathways |
updateKOGraphs | Update graphs based on based on KEGG Orthology (KO) constructed from KEGG pathways |
updateOrgAndIdType | Update the organism and the type of gene identifier |