In RicUIB/AligNet: Tool to Analyze PPI Networks and Align Networks using AligNet Algorithm algorithm

First we load the data. To do this vignette you can load the data available in this package

library(AligNet)
data(dme)
data(sce)
data("dme-dme")
data("sce-sce")
data("dme-sce")

Once we have the data loaded, we can compute the clusters

clusters.dme = extract.clusters(dme, cluster.network(dme.dme,0.2,20))

clusters.sce = extract.clusters(sce, cluster.network(sce.sce,0.2,20))

And with clusters, we can compute the local and the global alignment

all = internal[[1]]
global = internal[[2]][[2]]

all = align.local.all(clusters.dme, clusters.sce, dme.sce, 0)

global = align.global(all,dme.sce)

Finally with the alignments we compute the scores

EC.score(global, dme, sce)
data(go)
FC.score(global, go)

RicUIB/AligNet documentation built on May 28, 2019, 2:27 p.m.