adj,matrix,ANY-method {mina} | R Documentation

## Calculate the adjacency matrix of 'norm' by correlation with matrix as input.

### Description

Calculate the adjacency matrix of 'norm' by correlation with matrix as input.

### Usage

    ## S4 method for signature 'matrix,ANY'
    adj(x, method, sig = FALSE, threads = 80, nblocks = 400, ...)

    ## S4 method for signature 'matrix,character'
    adj(x, method, sig = FALSE, threads = 80, nblocks = 400, ...)

### Arguments

`x` | An object of the class mina with 'norm' defined or a 'norm' matrix.
`method` | The correlation coeffient used for adjacacency matrix.
`sig` | (optional) The asymtotic P-values, only applicable for Pearson and Spearman methods with 'mina' object as input, alwasy FALSE here.
`threads` | The number of threads used for parallel running, 80 by default.
`nblocks` | The number of row/column for splitting sub-matrix, 400 by default.
`...` | Additional parameters.

### Value

y The adjacency matrix.

### Examples

    asv_norm <- norm_tab(maize_asv2, method = "raref", depth = 1000)
    asv_adj <- adj(asv_norm, method = "pearson")

[Package mina version 1.2.0 Index]