extract {OMICsPCA} | R Documentation

## extraction of projected cooordinates from "PCA" object.

### Description

funtion to extract projected coordinates of individuals on principal components.

### Usage

    extract(name, groups, integrated = TRUE, Assay = NULL,
    rand = NULL, PC = c(1,2,3,4), groupinfo = NULL)

### Arguments

`name` | name of the OMICs object.
`groups` | one or more groups created by or supplied through "create_group()"
`integrated` | whether to extract coordinates from integrated or individual assay.
`Assay` | name of the assay if integrated = FALSE
`rand` | number of rows to be extracted randomly.
`PC` | principal component numbers. The projected informaton on this PCs will be extracted.
`groupinfo` | same as integrate_variables()

### Value

a data frame of the extracted value.

### Author(s)

Subhadeep Das

### Examples

    exclude <- list(0,c(1,9))

    int_PCA <- integrate_pca(Assays = c("H2az",
    "H3k9ac"),
    groupinfo = groupinfo,
    name = multi_assay, mergetype = 2,
    exclude = exclude, graph = FALSE)

    name = int_PCA$int_PCA

    data <- extract(name = name, PC = c(1:4),
    groups = c("WE","RE"), integrated = TRUE, rand = 600,
    groupinfo = groupinfo_ext)

[Package OMICsPCA version 1.10.0 Index]