R: Matrix T

matrix.t {SYNCSA} | R Documentation

## Matrix T

### Description

Function to obtain a matrix containing trait averages at community level. For more details, see `syncsa`.

### Usage

    matrix.t(comm, traits, scale = TRUE, ranks = TRUE, notification = TRUE)

### Arguments

`comm` | Community data, with species as columns and sampling units as rows. This matrix can contain either presence/absence or abundance data.
`traits` | Matrix or data frame of species described by traits, with traits as columns and species as rows.
`scale` | Logical argument (TRUE or FALSE) to specify if the traits are measured on different scales (Default scale = TRUE). When scale = TRUE traits are measured on different scales and the matrix T is subjected to standardization within each trait. When scale = FALSE traits are measured on the same scale the matrix T is not subjected to standardization.
`ranks` | Logical argument (TRUE or FALSE) to specify if ordinal variables are convert to ranks (Default ranks = TRUE).
`notification` | Logical argument (TRUE or FALSE) to specify if notifications of missing observations are shown (Default notification = TRUE).

### Value

`matriz.w` | Standardized community matrix, where rows are communities and columns species. Row totals (communities) = 1.
`matriz.b` | Matrix of traits, exactly the same data input.
`matriz.T` | Matrix containing trait averages at community level. If Scale = TRUE the matrix T is standardized within the traits.

### Note

IMPORTANT: The sequence species show up in community data matrix MUST be the same as they show up in traits matrix. See `organize.syncsa`.

### Author(s)

Vanderlei Julio Debastiani <vanderleidebastiani@yahoo.com.br>

### References

Pillar, V.D.; Duarte, L.d.S. (2010). A framework for metacommunity analysis of phylogenetic structure. Ecology Letters, 13, 587-596.

Pillar, V.D., Duarte, L.d.S., Sosinski, E.E. & Joner, F. (2009). Discriminating trait-convergence and trait-divergence assembly patterns in ecological community gradients. Journal of Vegetation Science, 20, 334:348.

### See Also

`syncsa`, `organize.syncsa`, `matrix.p`, `matrix.x`

### Examples

    data(ADRS)
    matrix.t(ADRS$community, ADRS$traits)

[Package SYNCSA version 1.3.4 Index]