qunet2xml {QUBIC} | R Documentation

## Convert newwork to XGMML

### Description

This function can convert the constructed co-expression networks into XGMML format, which can be used to do further network analysis in Cytoscape, Biomax and JNets.

### Usage

    qunet2xml(net, minimum = 0.6,
      color = cbind(grDevices::rainbow(length(net[[2]]) - 1), "gray"))

### Arguments

`net` | Result of `qunetwork`
`minimum` | cutoff, default: 0.6
`color` | default: cbind(grDevices::rainbow(length(net[[2]]) - 1), 'gray')

### Value

Text of XGMML

### See Also

`qunetwork` `QUBIC`

### Examples

    # Load microarray matrix
    data(BicatYeast)
    res <- biclust::biclust(BicatYeast[1:50, ], method=BCQU(), verbose = FALSE)
    # Get all biclusters
    net <- qunetwork(BicatYeast[1:50, ], res, group = c(4, 13), method = 'spearman')
    # Save the network to a XGMML file
    sink('tempnetworkresult.gr')
    qunet2xml(net, minimum = 0.6, color = cbind(grDevices::rainbow(length(net[[2]]) - 1), 'gray'))
    sink()
    # You can use Cytoscape, Biomax or JNets open file named tempnetworkresult.gr

[Package QUBIC version 1.14.0 Index]