threshold.select {bootcluster} | R Documentation |
Estimate of the overall Jaccard stability
data.input |
a |
threshold.seq |
a |
B |
number of bootstrap re-samplings |
cor.method |
the correlation method applied to the data set,three method are available: |
large.size |
the smallest set of modules, the |
PermuNo |
number of random graphs for the estimation of expected stability |
no_cores |
a |
threshold.select
is used to estimate of the overall Jaccard stability from
a sequence of given threshold candidates, threshold.seq
.
stabilityresult
a list
of result for nodes-wise stability
modularityresult
a list
of modularity information with each candidate threshold
jaccardresult
a list
estimated unconditional observed stability and
the estimates of expected stability under the nul
originalinformation
a list
information for original data,
igraph object and adjacency matrix constructed with each candidate threshold
threshold.seq
a list
of candicate threshold given to the function
Mingmei Tian
A framework for stability-based module detection in correlation graphs. Mingmei Tian,Rachael Hageman Blair,Lina Mu, Matthew Bonner, Richard Browne and Han Yu.
set.seed(1) data(wine) x0 <- wine[1:50,] mytest<-threshold.select(data.input=x0,threshold.seq=seq(0.5,0.8,by=0.05), B=20, cor.method='pearson',large.size=0, PermuNo = 10, no_cores=1, scheme_2 = FALSE)