setop: Set operations on GWAS Catalog objects.

In ramiromagno/gwasrapidd: 'REST' 'API' Client for the 'NHGRI'-'EBI' 'GWAS' Catalog

Set operations on GWAS Catalog objects.

Description

Performs set union, intersection, and (asymmetric!) difference on two objects of either class studies, associations, variants, or traits. Note that union() removes duplicated entities, whereas bind() does not.

Usage

union(x, y, ...)

intersect(x, y, ...)

setdiff(x, y, ...)

setequal(x, y, ...)

Arguments

x, y	Objects of either class studies, associations, variants, or traits.
...	other arguments passed on to methods.

Value

An object of the same class as x and y, i.e., studies, associations, variants, or traits.

Examples

#
# union()
#
# Combine studies and remove duplicates
union(studies_ex01, studies_ex02)

# Combine associations and remove duplicates
union(associations_ex01, associations_ex02)

# Combine variants and remove duplicates
union(variants_ex01, variants_ex02)

# Combine traits and remove duplicates
union(traits_ex01, traits_ex02)

#
# intersect()
#
# Intersect common studies
intersect(studies_ex01, studies_ex02)

# Intersect common associations
intersect(associations_ex01, associations_ex02)

# Intersect common variants
intersect(variants_ex01, variants_ex02)

# Intersect common traits
intersect(traits_ex01, traits_ex02)

#
# setdiff()
#
# Remove studies from ex01 that are also present in ex02
setdiff(studies_ex01, studies_ex02)

# Remove associations from ex01 that are also present in ex02
setdiff(associations_ex01, associations_ex02)

# Remove variants from ex01 that are also present in ex02
setdiff(variants_ex01, variants_ex02)

# Remove traits from ex01 that are also present in ex02
setdiff(traits_ex01, traits_ex02)

#
# setequal()
#
# Compare two studies objects
setequal(studies_ex01, studies_ex01)
setequal(studies_ex01, studies_ex02)

# Compare two associations objects
setequal(associations_ex01, associations_ex01)
setequal(associations_ex01, associations_ex02)

# Compare two variants objects
setequal(variants_ex01, variants_ex01)
setequal(variants_ex01, variants_ex02)

# Compare two traits objects
setequal(traits_ex01, traits_ex01)
setequal(traits_ex01, traits_ex02)

ramiromagno/gwasrapidd documentation built on Jan. 3, 2024, 10:21 p.m.