Working with Sets the Tidy Way

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Documentation for package ‘BaseSet’ version 0.0.17

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A B C D E F G I L M N P R S T U

BaseSet-package BaseSet: Working with Sets the Tidy Way

-- A --

activate Determine the context of subsequent manipulations.
active Determine the context of subsequent manipulations.
add_column Add column
add_column-method Add column
add_elements Add elements to a TidySet
add_relation Add relations
add_relation-method Add relations
add_relations Add relations to a TidySet
add_sets Add sets to a TidySet
adjacency Adjacency
adjacency.TidySet Adjacency
adjacency_element Adjacency
adjacency_set Adjacency
arrange.TidySet Arrange the order of a TidySet
arrange_element Arrange the order of a TidySet
arrange_relation Arrange the order of a TidySet
arrange_set Arrange the order of a TidySet
as.data.frame.TidySet Transforms a TidySet to a data.frame
as.list.TidySet Convert to list

-- B --

BaseSet BaseSet: Working with Sets the Tidy Way

-- C --

cardinality Cardinality or membership of sets
cardinality-method Cardinality or membership of sets
cartesian Create the cartesian product of two sets
cartesian.TidySet Create the cartesian product of two sets
complement Complement TidySet
complement_element Complement of elements
complement_element-method Complement of elements
complement_set Complement of a set
complement_set-method Complement of a set

-- D --

deactivate Determine the context of subsequent manipulations.
droplevels.TidySet Drop unused elements and sets

-- E --

elements Elements of the TidySet
elements-method Elements of the TidySet
elements<- Elements of the TidySet
elements<--method Elements of the TidySet
element_size Calculates the size of the elements
element_size-method Calculates the size of the elements

-- F --

filter.TidySet Filter TidySet
filter_element Filter TidySet
filter_relation Filter TidySet
filter_set Filter TidySet

-- G --

getGAF Read a GAF file
getGMT Import GMT (Gene Matrix Transposed) files
getOBO Read an OBO file
group Create a new set from existing elements
group.TidySet Create a new set from existing elements
group_by.TidySet group_by TidySet

-- I --

incidence Incidence
incidence-method Incidence
independent Independence of the sets
independent_probabilities Probability of a vector of probabilities
intersect Intersection of two or more sets
intersection Intersection of two or more sets
intersection-method Intersection of two or more sets
is.fuzzy Check if a TidySet is fuzzy.
is.fuzzy-method Check if a TidySet is fuzzy.
is_nested Are some sets as elements of other sets?
is_nested.TidySet Are some sets as elements of other sets?

-- L --

length_probability Calculates the probability of a single length
length_set Calculates the probability

-- M --

move_to Move columns between slots
move_to-method Move columns between slots
multiply_probabilities Probability of a vector of probabilities
mutate.TidySet Mutate
mutate_element Mutate
mutate_relation Mutate
mutate_set Mutate

-- N --

name_elements Name elements
name_elements-method Name elements
name_elements<- Rename elements
name_elements<--method Name elements
name_sets Name sets
name_sets-method Name sets
name_sets<- Rename sets
name_sets<--method Name sets
naming Name an operation
nElements Number of elements
nElements-method Elements of the TidySet
nRelations Number of relations
nRelations-method Relations of the TidySet
nSets Number of sets
nSets-method Sets of the TidySet

-- P --

power_set Create the power set
pull.TidySet Pull from a TidySet
pull_element Pull from a TidySet
pull_relation Pull from a TidySet
pull_set Pull from a TidySet

-- R --

relations Relations of the TidySet
relations-method Relations of the TidySet
relations<- Relations of the TidySet
relations<--method Relations of the TidySet
remove_column Remove column
remove_column-method Remove column
remove_element Remove elements
remove_element-method Remove elements
remove_relation Remove a relation
remove_relation-method Remove a relation
remove_set Remove sets
remove_set-method Remove sets
rename_elements Rename elements
rename_elements-method Rename elements
rename_set Rename sets
rename_set-method Rename sets
replace_elements Elements of the TidySet
replace_relations Relations of the TidySet
replace_sets Sets of the TidySet

-- S --

select.TidySet select from a TidySet
select_element select from a TidySet
select_relation select from a TidySet
select_set select from a TidySet
sets Sets of the TidySet
sets-method Sets of the TidySet
sets<- Sets of the TidySet
sets<--method Sets of the TidySet
set_size Calculates the size of a set
set_size-method Calculates the size of a set
set_symbols A subset of symbols related to sets
show-method Method to show the TidySet object
size Size
subtract Subtract
subtract-method Subtract

-- T --

tidy Convert GSEABase classes to a TidySet
tidy.GeneSet Convert GSEABase classes to a TidySet
tidy.GeneSetCollection Convert GSEABase classes to a TidySet
TidySet A tidy class to represent a set
tidySet Create a TidySet object
TidySet-class A tidy class to represent a set
tidySet.data.frame Create a TidySet object
tidySet.Go3AnnDbBimap Create a TidySet object
tidySet.list Create a TidySet object
tidySet.matrix Create a TidySet object

-- U --

union Join sets
union.TidySet Join sets
union_probability Calculates the probability of a single length