analyse_individuals: Quick analysis and visualization of the...

In subhadeep1024/OMICsPCA: An R package for quantitative integration and analysis of multiple omics assays from heterogeneous samples

Description

This function displays scatterplot of the individuals from integrated assays. This allows the display of scatterplots both in 2D and 3D.

Usage

analyse_individuals(name,Assay, choice, PC, group,
groupinfo = NULL, ...)

Arguments

name	Name of the "PCA" object containing the assay data
Assay	Name of an Assay
choice	1 = 2D scatterplot on selected PCs through PC argument. 2 = 3D scatterplot on selected PCs through PC argument for details of the choices see the vignette
PC	A vector of numbers corresponding to principal components
group	A vector of group names. Required only if choice = 2
groupinfo	output of create_group, or similar object containing group information.
...	additional arguments allowed to base function "plot3d" of package "rgl"

Value

Displays various plots and tables as per the combination of input arguments

Author(s)

Subhadeep Das <[e-mail]>

Examples

PCAlist <- integrate_variables(Assays = c("H2az","H3k4me1",
"H3k9ac"), name = multi_assay,
groups = c("WE","RE"), groupinfo = groupinfo_ext,
scale.unit = FALSE, graph = FALSE)

analyse_individuals(name = PCAlist,
Assay = "H3k9ac", groupinfo = groupinfo_ext,
choice = 1, PC = c(1,2))

subhadeep1024/OMICsPCA documentation built on March 17, 2020, 5:23 p.m.