Description Slots method See Also Examples
Object representing the seed sets of a given metabolic network
GsMN,
a igraph network
seeds,
a character list represents seeds of a given metabolic network which is composed of the KEGG compound index.
getGsMN, signature(object = "seedset")
:
get the genome scale metabolic network whose seed set is caculated
len, signature(object = "seedset")
:
return the number of source SCC
seedSize, signature(object = "seedset")
:
returns the sizes of each source SCCs
nonseed, signature(object = "seedset")
:
the non seeds of the GsMN
show, signature(object = "seedset")
:
show the short summary of a seedset class
confidencescore, signature(object = "seedset")
:
confidence score of the seed set
getSeedSets
,getGsMN
,len
,
nonseed
,seedSize
,confidencescore
1 2 3 4 5 6 7 8 9 | ## Not run:
#' ## generate a metabolic network in igraph class and a seed set of this graph
annodir <- system.file("extdata","koanno.tab",package = "RevEcoR")
metabolic.data <- read.delim2(file=annodir,stringsAsFactors=FALSE)
g <- reconstructGsMN(metabolic.data)
seeds <- getSeedSets(g)@seeds
seed.set <- new("seedset",GsMN = g, seeds = seeds)
## End(Not run)
|
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