analyse_individuals {OMICsPCA} | R Documentation

## Quick analysis and visualization of the individuals/annotations/rows (e.g. Tss, gene) from integrated Assay.

### 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 <subhadeep1024@gmail.com>

### 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))

[Package OMICsPCA version 1.4.0 Index]