Description Usage Arguments Value
getgobp.all()
generates a result file of ego gene X, significant GO terms of X, significant GO terms
of genes within k steps of X, gene W, significant GO terms of W,
1 2 | getgobp.all(graph, z.matrix, k = 2, n.cores = 4, cutoff = 1,
community.min = 5, term.limit = NA)
|
z.matrix |
A matrix representing gene Z. (selected scouting genes). Row names are the gene id in gene network. |
k |
An Integer giving the order of the network. |
n.cores |
The number of cores used for parallel computing. |
cutoff |
The threshold to find LA scouting genes. |
community.min |
An Integer confines the min gene numbers in community. |
term.limit |
The maximum number of GO terms to list in a row of the table. |
A table containing the IDs of scouting center genes W, over-represented GO terms by W, semantic similarity on the Gene Ontology system between the X ego network and all scouting center genes, average graph distance between gene X and W.
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