BiocSet-class: BiocSet class

In BiocSet: Representing Different Biological Sets

Description

character()

The BiocSet constructor, the show method, the slot accessors, and creating a BiocSet object from an element set tibble rather than character vector(s).

Usage

BiocSet(..., metadata = list(), active = c("elementset", "element", "set"))

## S4 method for signature 'BiocSet'
show(object)

es_element(x)

## S4 method for signature 'BiocSet'
es_element(x)

es_set(x)

## S4 method for signature 'BiocSet'
es_set(x)

es_elementset(x)

## S4 method for signature 'BiocSet'
es_elementset(x)

BiocSet_from_elementset(elementset, element, set, metadata)

Arguments

...	Named character() vectors of element sets, or a named list of character() vectors. Each character vector is an element set. The names of the character vectors are the names of the sets.
metadata	A list() with arbitrary content, describing the set.
active	A character(1) to indicate which tibble is active. The default is "elementset".
object	A BiocSet object.
x	A BiocSet object.
elementset	A tibble with element set information.
element	A tibble with element information.
set	A tibble with set information.

Value

An S4 BiocSet object shown as a tripple tibble, where each slot is a tibble.

Slots

element

The element tibble from 'tbl_elementset'

set

The set tibble from 'tbl_elementset'

elementset

The elementset tibble created from user input

active

A character(1), indicates which tibble is active

metadata

A list() with arbitrary elements describing the set

Examples

BiocSet(set1 = letters, set2 = LETTERS)
lst <- list(set1 = letters, set2 = LETTERS)
BiocSet(lst)

set.seed(123)
element <-
   tibble(
       element = letters[1:10],
       v1 = sample(10),
       v2 = sample(10)
   )
set <-
   tibble(
       set = LETTERS[1:2],
       v1 = sample(2),
       v2 = sample(2)
   )
elementset <-
   tibble(
       element = letters[1:10],
       set = sample(LETTERS[1:2], 10, TRUE)
   )
BiocSet_from_elementset(elementset, element, set)

BiocSet documentation built on Nov. 8, 2020, 7:48 p.m.