background |
The Background Genes. |
cutoffAnn |
Get the statistically significantly enriched pathways |
dGraph |
Directed graph list constructed from KEGG metabolic pathways |
ec2gene |
A list that maps Enzyme Commission numbers to gene identifiers |
gene2ec |
A list that maps gene identifiers to Enzyme Commission numbers |
gene2path |
A list that maps gene identifiers to KEGG pathway identifiers |
getAexample |
Get a set of genes |
getAnn |
Annotate a set of genes to pathways or sub-pathways |
getDefaultBackground |
Get the default background genes |
getDefaultGraph |
Get relationship between KEGG pathways and genes |
getDefaultMetabolicPathway |
Get an identifier list of the default metabolic pathways |
getDefaultUndirectedGraph |
Get the default undirected graph |
getEnzymeFromGene |
Get a list of enzymes from a list of genes |
getGeneFromEnzyme |
Get a list of genes from a list of enzymes |
getGeneFromPathway |
Get genes from pathways |
getKcsmpAnn |
Get the sub-pathways annotation and identification of metabolic network |
getKcSubGraph |
Mine sub-pathways from the version of metabolic pathways |
getMpAnn |
get annotation informations of metabolic pathways |
getOrgAndIdType |
Get the type of organism and identifier in the current environment variable |
getPathwayFromGene |
Get pathwaysfrom genes |
getPathwayNameFromId |
Get pathway name from identifier |
gotoKEGG |
Visualize pathways or sub-pathways through linking to the KEGG web site |
ke2g |
The environment variable of the system |
keggpathid2name |
The data that maps KEGG pathway identifiers to names |
loadKe2g |
ke2g environment function |
mpidList |
metabolic pathway identifier list |
path2gene |
A list that maps KEGG pathway identifiers to gene identifiers |
plotAnn |
Visualize pathways or sub-pathways |
printAnn |
Print the results of pathway annotation and identification |
saveKe2g |
ke2g environment function |
uGraph |
The undirected graph list constructed from KEGG metabolic pathways |
updateGraphs |
Update graphs constructed from KEGG metabolic pathways |
updateOrgAndIdType |
Update the organism and the type of gene identifier |