testMotif {pandaR} | R Documentation

## Check motif

### Description

This function adds random false positive edges to the regulatory prior and will check if they become pruned.

### Usage

    testMotif(x, motif, expr, ppi, mode = c("augment", "remove"), prop = 0.05,
      seed = 1, ...)

### Arguments

`x` | Model regulatory network.
`motif` | Motif used to construct the model regulatory network.
`expr` | Expression matrix used to construct model network.
`ppi` | PPI used to construct model regulatory network.
`mode` | a character string - either "augment" to add random edges or "remove" to remove random edges.
`prop` | numeric specifying number of edges to augment or remove from regulatory prior, as a proportion of the number of edges in the regulatory prior.
`seed` | Random seed.
`...` | Options for the panda function.

### Value

ggplot heatmap list of indices of net corresponding to each TF

### Examples

    data(pandaToyData)
    data(pandaResult)
    regnet = slot(pandaResult,"regNet")
    with(pandaToyData, testMotif(regnet, motif, mode="augment", expression, ppi, hamming=1))

[Package pandaR version 1.16.0 Index]