plotCLUSTERS {DCG} | R Documentation |
plotCLUSTERS
plot all cluster treesgenerate tree plots for each ensemble matrix
plotCLUSTERS
plot all cluster trees
plotCLUSTERS(EnsList, mfrow, mar = c(1, 1, 1, 1), line = -1.5,
cex = 0.5, ...)
EnsList |
a list in which elements are ensemble matrices. |
mfrow |
A vector of the form |
mar |
plotting parameters with useful defaults ( |
line |
plotting parameters with useful defaults ( |
cex |
plotting parameters with useful defaults ( |
... |
further plotting parameters |
plotCLUSTERS
plots all cluster trees with each tree corresponding to each ensemble matrix in the list of ens_list.
EnsList
is the output from getEnsList
.
mfrow
determines the arrangement of multiple plots. It takes the form of
c(nr, nc)
with the first parameter being the number of rows and
the second parameter being the number of columns. When deciding parameters for mfrow,
one should take into considerations size of the plotting device and number of cluster plots.
For example, there are 20 cluster plots, mfrow can be set to c(4, 5)
or c(2, 10)
depending on the size and shape of the plotting area.
a graph containing all tree plots with each tree plot corresponding to the community structure from each of the ensemble matrix.
Fushing, H., & McAssey, M. P. (2010). Time, temperature, and data cloud geometry. Physical Review E, 82(6), 061110.
Chen, C., & Fushing, H. (2012). Multiscale community geometry in a network and its application. Physical Review E, 86(4), 041120.
Fushing, H., Wang, H., VanderWaal, K., McCowan, B., & Koehl, P. (2013). Multi-scale clustering by building a robust and self correcting ultrametric topology on data points. PloS one, 8(2), e56259.
symmetricMatrix <- as.symmetricAdjacencyMatrix(monkeyGrooming, weighted = TRUE, rule = "weak")
Sim <- as.SimilarityMatrix(symmetricMatrix)
temperatures <- temperatureSample(start = 0.01, end = 20, n = 20, method = 'random')
## Not run:
# for illustration only. skip CRAN check because it ran forever.
Ens_list <- getEnsList(Sim, temperatures, MaxIt = 1000, m = 5)
## End(Not run)
plotCLUSTERS(EnsList = Ens_list, mfrow = c(2, 10), mar = c(1, 1, 1, 1))