corrMatOrder

0th

Percentile

Reorder a correlation matrix.

Draw rectangle(s) around the chart of corrrlation matrix based on the number of each cluster's members.

Keywords
hplot
Usage
corrMatOrder(corr, order = c("AOE", "FPC", "hclust", "alphabet"),
  hclust.method = c("complete", "ward", "ward.D", "ward.D2", "single",
  "average", "mcquitty", "median", "centroid"))
Arguments
corr

Correlation matrix to reorder.

order

Character, the ordering method for the correlation matrix.

  • "AOE" for the angular order of the eigenvectors. It is calculated from the order of the angles, \(a_i\): $$ a_i = tan (e_{i2} / e_{i1}), if e_{i1} > 0$$ $$ a_i = tan (e_{i2} / e_{i1}) + \pi, otherwise.$$ where \(e_1\) and \(e_2\) are the largest two eigenvalues of matrix corr. See Michael Friendly (2002) for details.

  • "FPC" for the first principal component order.

  • "hclust" for hierarchical clustering order.

  • "alphabet" for alphabetical order.

hclust.method

Character, the agglomeration method to be used when order is hclust. This should be one of "ward", "ward.D", "ward.D2", "single", "complete", "average", "mcquitty", "median" or "centroid".

Value

Returns a single permutation vector.

See Also

Package seriation offers more methods to reorder matrices, such as ARSA, BBURCG, BBWRCG, MDS, TSP, Chen and so forth.

Aliases
  • corrMatOrder
Examples
# NOT RUN {
M <- cor(mtcars)

(order.AOE <- corrMatOrder(M, order = "AOE"))
(order.FPC <- corrMatOrder(M, order = "FPC"))
(order.hc <- corrMatOrder(M, order = "hclust"))
(order.hc2 <- corrMatOrder(M, order = "hclust", hclust.method = "ward"))

M.AOE <- M[order.AOE,order.AOE]
M.FPC <- M[order.FPC,order.FPC]
M.hc  <- M[order.hc, order.hc]
M.hc2 <- M[order.hc2,order.hc2]



par(ask = TRUE)
corrplot(M)
corrplot(M.AOE)
corrplot(M.FPC)
corrplot(M.hc)

corrplot(M.hc)
corrRect.hclust(corr = M.hc, k = 2)

corrplot(M.hc)
corrRect.hclust(corr = M.hc, k = 3)

corrplot(M.hc2)
corrRect.hclust(M.hc2, k = 2, method = "ward")
# }
Documentation reproduced from package corrplot, version 0.84, License: GPL

Community examples

Looks like there are no examples yet.