cola_opt: Global parameters

In jokergoo/cola: A Framework for Consensus Partitioning

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)

jokergoo/cola documentation built on Feb. 29, 2024, 1:41 a.m.