R: Staged Event Trees

# Staged Event Trees

## Documentation for package ‘stagedtrees’ version 2.3.0

- DESCRIPTION file
- Package NEWS
- Package README

## Help Pages

A B C D F G H I J L M P R S T W misc

stagedtrees-package | Staged event trees.

## -- A --

as.character.parentslist | Print a parentslist object
Asym | Asym dataset
as_adj_matrix | Convert to an adjacency matrix
as_adj_matrix.ceg | Convert to an adjacency matrix
as_adj_matrix.parentslist | Convert to an adjacency matrix
as_bn | Convert to a 'bnlearn' object
as_bn.parentslist | Convert to a 'bnlearn' object
as_bn.sevt | Convert to a 'bnlearn' object
as_igraph | 'igraph' conversion
as_igraph.ceg | 'igraph' conversion
as_igraph.sevt | 'igraph' conversion
as_parentslist | Obtain the equivalent DAG as list of parents
as_parentslist.bn | Obtain the equivalent DAG as list of parents
as_parentslist.bn.fit | Obtain the equivalent DAG as list of parents
as_parentslist.sevt | Obtain the equivalent DAG as list of parents
as_sevt | Coerce to sevt
as_sevt.bn | Coerce to sevt
as_sevt.bn.fit | Coerce to sevt
as_sevt.parentslist | Coerce to sevt

## -- B --

barplot.sevt | Bar plots of stage probabilities

## -- C --

ceg | Chain event graph (CEG)
cid | Context specific interventional discrepancy
ci_matrices | Conditional independences matrices of stages
compare_stages | Compare two staged event tree
confint.sevt | Confidence intervals for staged event tree parameters
covid_patients | Trajectories of hospitalized SARS-CoV-2 patients

## -- D --

depsubtree | Extract dependency subtree
diff_stages | Compare two staged event tree

## -- F --

full | Full and independent staged event tree
full.data.frame | Full and independent staged event tree
full.table | Full and independent staged event tree
full_indep | Full and independent staged event tree

## -- G --

generate_linear_dataset | Generate a random binary dataset for classification
generate_random_dataset | Generate a random binary dataset
generate_xor_dataset | Generate a xor dataset
get_edges | 'igraph' conversion
get_edges.ceg | 'igraph' conversion
get_edges.sevt | 'igraph' conversion
get_path | Get stage or path
get_stage | Get stage or path
get_vertices | 'igraph' conversion
get_vertices.ceg | 'igraph' conversion
get_vertices.sevt | 'igraph' conversion

## -- H --

hamming_stages | Compare two staged event tree

## -- I --

igraph-conversion | 'igraph' conversion
inclusions_stages | Inclusions of stages
indep | Full and independent staged event tree
indep.data.frame | Full and independent staged event tree
indep.table | Full and independent staged event tree

## -- J --

join_positions | join positions in a staged tree model
join_unobserved | Join situations with no observations

## -- L --

logLik.sevt | Log-Likelihood of a staged event tree
lr_test | Likelihood Ratio Test for staged trees models

## -- M --

make_stages_col | Plot method for staged event trees

## -- P --

PhDArticles | PhD Students Publications
plot.ceg | igraph's plotting for CEG
plot.sevt | Plot method for staged event trees
Pokemon | Pokemon Go Users
predict.sevt | Predict method for staged event tree
print.parentslist | Print a parentslist object
print.sevt | Print a staged event tree
print.sevt.stgs | The stages of a staged event tree
print.summary.sevt | Summarizing staged event trees
prob | Probabilities for a staged event tree

## -- R --

random_parentslist | Generate a random 'parentslist' object (DAG)
random_sevt | Generate a random (fitted) sevt
random_sevt.list | Generate a random (fitted) sevt
random_sevt.parentslist | Generate a random (fitted) sevt
random_sevt.sevt | Generate a random (fitted) sevt
rename_stage | Rename stage(s) in staged event tree

## -- S --

sample_from | Sample from a staged event tree
search_best | Optimal Order Search
search_greedy | Greedy Order Search
sevt | Staged event tree (sevt) class
sevt.data.frame | Staged event tree (sevt) class
sevt.list | Staged event tree (sevt) class
sevt.table | Staged event tree (sevt) class
sevt_add | Add a variable to a staged event tree
sevt_df | Number of parameters of a staged event tree
sevt_fit | Fit a staged event tree
sevt_nvar | Number of variables
sevt_simplify | Simplify a staged tree model
sevt_varnames | Variable names
stagedtrees | Staged event trees.
stages | The stages of a staged event tree
stages.sevt | The stages of a staged event tree
stages<- | The stages of a staged event tree
stages_bhc | Backward hill-climbing
stages_bhcr | Backward random hill-climbing
stages_bj | Backward joining of stages
stages_csbhc | Context-specific Backward hill-climbing
stages_fbhc | Fast backward hill-climbing
stages_hc | Hill-climbing
stages_hclust | Learn a staged tree with hierarchical clustering
stages_kmeans | Learn a staged tree with k-means clustering
stages_simplebhc | Backward hill-climbing for simple staged trees
stndnaming | Standard renaming of stages
subtree | Extract subtree
summary.sevt | Summarizing staged event trees

## -- T --

text.sevt | Add text to a staged event tree plot
trajectories | Hospital trajectories

## -- W --

write_tikz | Export the staged tree or CEG graph to tikz
write_tikz.sevt | Export the staged tree or CEG graph to tikz

## -- misc --

[.sevt.stgs | The stages of a staged event tree
[<-.sevt.stgs | The stages of a staged event tree
[[.sevt.stgs | The stages of a staged event tree
[[<-.sevt.stgs | The stages of a staged event tree