# corrMatOrder

##### 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.

##### 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*