Package: BaseSet 0.9.0.9002
Lluís Revilla Sancho
BaseSet: Working with Sets the Tidy Way
Implements a class and methods to work with sets, doing intersection, union, complementary sets, power sets, cartesian product and other set operations in a "tidy" way. These set operations are available for both classical sets and fuzzy sets. Import sets from several formats or from other several data structures.
Authors:
BaseSet_0.9.0.9002.tar.gz
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BaseSet.pdf |BaseSet.html✨
BaseSet/json (API)
NEWS
| # Install 'BaseSet' in R: |
| install.packages('BaseSet', repos = c('https://ropensci.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/ropensci/baseset/issues
Pkgdown:https://docs.ropensci.org
bioconductorbioconductor-packagesets
Last updated 1 years agofrom:4936e88805 (on master). Checks:OK: 1 ERROR: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 27 2024 |
| R-4.5-win | ERROR | Dec 04 2024 |
| R-4.5-linux | ERROR | Dec 04 2024 |
| R-4.4-win | ERROR | Dec 04 2024 |
| R-4.4-mac | ERROR | Dec 04 2024 |
| R-4.3-win | ERROR | Dec 04 2024 |
| R-4.3-mac | ERROR | Dec 04 2024 |
Exports:%>%activateactiveadd_columnadd_elementsadd_relationadd_relationsadd_setsadjacency_elementadjacency_setarrangearrange_elementarrange_relationarrange_setcardinalitycartesiancomplementcomplement_elementcomplement_setdeactivateelement_sizeelementselements<-filterfilter_elementfilter_relationfilter_setgetGAFgetGMTgetOBOgroupgroup_byincidenceindependentindependent_probabilitiesintersectionis_nestedis.fuzzylength_probabilitylength_setmove_tomultiply_probabilitiesmutatemutate_elementmutate_relationmutate_setname_elementsname_elements<-name_setsname_sets<-namingnElementsnRelationsnSetspower_setpullpull_elementpull_relationpull_setrelationsrelations<-remove_columnremove_elementremove_relationremove_setrename_elementsrename_setreplace_elementsreplace_relationsreplace_setsselectselect_elementselect_relationselect_setset_sizeset_symbolssetssets<-showsizesubtracttidytidySetunionunion_closedunion_probability
Dependencies:clidplyrfansigenericsgluelifecyclemagrittrpillarpkgconfigR6rlangtibbletidyselectutf8vctrswithr
Advanced examples
Rendered fromadvanced.Rmdusingknitr::rmarkdownon Nov 27 2024.Last update: 2023-07-09
Started: 2019-02-11
BaseSet
Rendered fromBaseSet.Rmdusingknitr::rmarkdownon Nov 27 2024.Last update: 2023-07-09
Started: 2023-07-09
Fuzzy sets
Rendered fromfuzzy.Rmdusingknitr::rmarkdownon Nov 27 2024.Last update: 2023-07-09
Started: 2019-09-06
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Determine the context of subsequent manipulations. | activate active deactivate |
| Add column | add_column add_column,TidySet,character-method |
| Add elements to a TidySet | add_elements |
| Add relations | add_relation add_relation,TidySet,data.frame-method |
| Add relations to a TidySet | add_relations |
| Add sets to a TidySet | add_sets |
| Adjacency | adjacency adjacency.TidySet adjacency_element adjacency_set |
| Arrange the order of a TidySet | arrange.TidySet arrange_element arrange_relation arrange_set |
| Transforms a TidySet to a data.frame | as.data.frame.TidySet |
| Convert to list | as.list.TidySet |
| Combine Values into a Vector or List | c,TidySet-method |
| Cardinality or membership of sets | cardinality cardinality,TidySet-method |
| Create the cartesian product of two sets | cartesian cartesian.TidySet |
| Complement TidySet | complement |
| Complement of elements | complement_element complement_element,TidySet,characterORfactor-method |
| Complement of a set | complement_set complement_set,TidySet,characterORfactor-method |
| Dimnames of a TidySet | dimnames.TidySet |
| Drop unused elements and sets | droplevels.TidySet |
| Calculates the size of the elements | element_size element_size,TidySet-method |
| Elements of the TidySet | elements elements,TidySet-method elements<- elements<-,TidySet-method nElements,TidySet,logical-method nElements,TidySet,missing-method replace_elements |
| Extract | $,TidySet-method $<-,TidySet-method extract-TidySet [,TidySet-method [<-,TidySet-method [[,TidySet-method [[<-,TidySet-method |
| Filter TidySet | filter.TidySet filter_element filter_relation filter_set |
| Read a GAF file | getGAF |
| Import GMT (Gene Matrix Transposed) files | getGMT |
| Read an OBO file | getOBO |
| Create a new set from existing elements | group group.TidySet |
| group_by TidySet | group_by.TidySet |
| Incidence | incidence incidence,TidySet-method |
| Independence of the sets | independent |
| Intersection of two or more sets | intersect intersection intersection,TidySet,character-method |
| Are some sets as elements of other sets? | is_nested is_nested.TidySet |
| Check if a TidySet is fuzzy. | is.fuzzy is.fuzzy,TidySet-method |
| Calculates the probability | length_set |
| Length of the TidySet | length.TidySet |
| Lengths of the TidySet | lengths,TidySet-method |
| Move columns between slots | move_to move_to,TidySet,characterORfactor,characterORfactor,character-method |
| Probability of a vector of probabilities | independent_probabilities multiply_probabilities |
| Mutate | mutate.TidySet mutate_element mutate_relation mutate_set |
| Name elements | name_elements name_elements,TidySet,logical-method name_elements,TidySet,missing-method name_elements<-,TidySet,logical,characterORfactor-method name_elements<-,TidySet,missing,characterORfactor-method |
| Rename elements | name_elements<- |
| Name sets | name_sets name_sets,TidySet,logical-method name_sets,TidySet,missing-method name_sets<-,TidySet,logical,characterORfactor-method name_sets<-,TidySet,missing,characterORfactor-method |
| Rename sets | name_sets<- |
| Names of a TidySet | names.TidySet |
| Name an operation | naming |
| Number of elements | nElements |
| Number of relations | nRelations |
| Number of sets | nSets |
| Create the power set | power_set |
| Pull from a TidySet | pull.TidySet pull_element pull_relation pull_set |
| Relations of the TidySet | nRelations,TidySet-method relations relations,TidySet-method relations<- relations<-,TidySet-method replace_relations |
| Remove column | remove_column remove_column,TidySet,character,character-method |
| Remove elements | remove_element remove_element,TidySet,characterORfactor-method |
| Remove a relation | remove_relation remove_relation,TidySet,characterORfactor,characterORfactor-method |
| Remove sets | remove_set remove_set,TidySet,characterORfactor-method |
| Rename elements | rename_elements rename_elements,TidySet-method |
| Rename sets | rename_set rename_set,TidySet-method |
| select from a TidySet | select.TidySet select_element select_relation select_set |
| Calculates the size of a set | set_size set_size,TidySet-method |
| A subset of symbols related to sets | set_symbols |
| Sets of the TidySet | nSets,TidySet,logical-method nSets,TidySet,missing-method replace_sets sets sets,TidySet-method sets<- sets<-,TidySet-method |
| Method to show the TidySet object | show,TidySet-method |
| Size | size |
| Subtract | subtract subtract,TidySet,characterORfactor,characterORfactor-method |
| Convert GSEABase classes to a TidySet | tidy tidy.GeneSet tidy.GeneSetCollection |
| Create a TidySet object | tidySet tidySet.data.frame tidySet.Go3AnnDbBimap tidySet.list tidySet.matrix tidySet.TidySet |
| A tidy class to represent a set | TidySet TidySet-class |
| Join sets | union union.TidySet |
| Union closed sets | union_closed union_closed.TidySet |
| Calculates the probability of a single length | length_probability union_probability |
