cola_opt {cola} | R Documentation

## Global parameters

### Description

Global parameters

### Usage

    cola_opt(..., RESET = FALSE, READ.ONLY = NULL, LOCAL = FALSE, ADD = FALSE)

### Arguments

`...` | Arguments for the parameters, see "details" section.
`RESET` | Whether to reset to default values.
`READ.ONLY` | Please ignore.
`LOCAL` | Please ignore.
`ADD` | Please ignore.

### Details

There are following global parameters:

`group_diff`

  Used in `get_signatures,ConsensusPartition-method` to globally control the minimal difference between subgroups.

`fdr_cutoff`

  Used in `get_signatures,ConsensusPartition-method` to globally control the cutoff of FDR for the differential signature tests.

`color_set_2`

  Colors for the predicted subgroups.

`help`

  Whether to print help messages.

`message`

  Whether to print messages.

### Examples

    cola_opt
    cola_opt$group_diff = 0.2  # e.g. for methylation datasets
    cola_opt$fdr_cutoff = 0.1  # e.g. for methylation datasets
    cola_opt
    cola_opt(RESET = TRUE)

[Package cola version 1.8.1 Index]