coloring: Coloring schema for plotting

In vanduttran/dsMO: Client Side Functions for Federated Multi-Omics Analysis on the Virtual Cohort

Coloring schema for plotting

Description

This functions mapped data values from a variable in the virtual cohort to color codes.

Usage

coloring(logins, func, symbol, what,
                continuous_scale = rep(TRUE, length(what)),
                nbreaks = 2,
                colors = c('orange', 'blue'),
                ...)

Arguments

logins	Login information of data repositories, where dsMOprimal is installed.
func	Definition of a function for preparation of raw data matrices.
symbol	The symbol provided when calling the function func for data preparation.
what	The variable names used to map to color codes, in form of 'data.frame$variable' or c('data.frame$variable1', ...).
continuous_scale	A logical value indicating whether the coloring mapping is continuous. Default, TRUE.
nbreaks	An integer indicating the number of intervals into which x is to be cut, less than 1/10 of number of samples, when x is the coloring scale is continuous.
colors	A vector of colors to interpolate, must be a valid argument to col2rgb(). Default, c('orange', 'blue'), min to max what value
...	arguments to pass to colorRampPalette

Value

A vector of The color codes for all samples

Examples

data(logindata)
data(procFunc)

resColors <- coloring(logins=logindata[1:2,],
                      func=procFunc$SingleOmics,
                      symbol='rawDataX',
                      what='rawDataX_discrete$PM_BMI_CONTINUOUS',
                      continuous_scale=TRUE, nbreaks=4)
resColors <- coloring(logins=logindata[1:2,],
                      func=procFunc$SingleOmics,
                      symbol='rawDataX',
                      what='rawDataX_discrete$PM_BMI_CATEGORICAL',
                      continuous_scale=FALSE, levels=NULL)

vanduttran/dsMO documentation built on Oct. 17, 2024, 1:14 a.m.