Utilities for Learning Sparse Bayesian Networks


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Documentation for package ‘sparsebnUtils’ version 0.0.8

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A C D E F G H I L N O P R S T Z

-- A --

alg_input_data_frame Messages
as.data.frame.sparsebnData Convert a sparsebnData object back to a data.frame
as.edgeList as.edgeList
as.sparse as.sparse
auto_count_levels Utility functions
auto_generate_levels Utility functions

-- C --

capitalize Utility functions
check_if_complete_data Utility functions
check_if_data_matrix Utility functions
check_if_matrix Utility functions
check_if_numeric_data Utility functions
check_list_class Utility functions
check_list_names Utility functions
check_list_numeric Utility functions
check_na Utility functions
check_null Utility functions
coerce_discrete Recode discrete data
coerce_discrete.character Recode discrete data
coerce_discrete.data.frame Recode discrete data
coerce_discrete.factor Recode discrete data
coerce_discrete.integer Recode discrete data
coerce_discrete.numeric Recode discrete data
coerce_discrete.sparsebnData Recode discrete data
col_classes Utility functions
convert_factor_to_discrete Utility functions
cor_vector_ivn Utility functions
count.interventions Count the number of rows under intervention
count.levels Count the number of levels per variable
count_nas Utility functions

-- D --

dag_summary Messages
data_not_numeric Messages
default_alpha Utility functions
default_max_iters Utility functions
degrees Degree distribution of a graph

-- E --

edgeList edgeList class
empty_dag_summary Messages
estimate.parameters Estimate the parameters of a Bayesian network

-- F --

feature_not_supported Messages
fit_glm_dag Inference in Bayesian networks
fit_multinom_dag Inference in discrete Bayesian networks

-- G --

generate.lambdas generate.lambdas
get.adjacency.matrix get.adjacency.matrix
get.adjacency.matrix.edgeList get.adjacency.matrix
get.adjacency.matrix.sparsebnFit get.adjacency.matrix
get.adjacency.matrix.sparsebnPath get.adjacency.matrix
get.covariance Covariance and precision matrices
get.lambdas get.lambdas
get.lambdas.sparsebnPath get.lambdas
get.nodes get.nodes
get.nodes.sparsebnFit get.nodes
get.nodes.sparsebnPath get.nodes
get.precision Covariance and precision matrices
get.solution Select solutions from a solution path
getGraphPackage Change data structure for representing graphs internally
getPlotPackage Change default plotting mechanism
global_coerce_warning Messages

-- H --

has_missing_values Messages

-- I --

input_not_sparsebnData Messages
invalid_class Messages
invalid_pkg_specification Messages
invalid_type_input Messages
is.edgeList edgeList class
is.obs Check if data is observational
is.sparse sparse class
is.sparsebnData sparsebnData class
is.sparsebnFit sparsebnFit class
is.sparsebnPath sparsebnPath class
is.zero is.zero
is.zero.edgeList is.zero

-- L --

list_classes Utility functions

-- N --

num.edges num.edges
num.edges.edgeList num.edges
num.edges.sparsebnFit num.edges
num.edges.sparsebnPath num.edges
num.nodes num.nodes
num.nodes.edgeList num.nodes
num.nodes.sparsebnFit num.nodes
num.nodes.sparsebnPath num.nodes
num.samples num.samples
num.samples.sparsebnData num.samples
num.samples.sparsebnFit num.samples
num.samples.sparsebnPath num.samples

-- O --

openCytoscape Display graphs in Cytoscape

-- P --

permute.nodes Permute the order of nodes in a graph
pick_family Utility functions
pkg_not_installed Messages
plot.edgeList Plot a fitted Bayesian network object
plot.sparsebnData sparsebnData class
plot.sparsebnFit sparsebnFit class
plot.sparsebnPath sparsebnPath class
pmatch_numeric Utility functions
print.edgeList edgeList class
print.sparsebnData sparsebnData class
print.sparsebnFit sparsebnFit class
print.sparsebnPath sparsebnPath class

-- R --

random.dag Generate random DAGs
random.graph Generate random DAGs
random.spd Generate a random positive definite matrix
recode_levels Utility functions
reIndexC Utility functions
reIndexR Utility functions
resetGraphPackage Change data structure for representing graphs internally

-- S --

select Select solutions from a solution path
select.parameter Tuning parameter selection
setGraphPackage Change data structure for representing graphs internally
setPlotPackage Change default plotting mechanism
show.parents Inspect subgraph
sparse sparse class
sparsebn-compat Conversion between graph types
sparsebn-functions Utility functions
sparsebn-messages Messages
sparsebnData sparsebnData class
sparsebnData.data.frame sparsebnData class
sparsebnData.matrix sparsebnData class
sparsebnFit sparsebnFit class
sparsebnPath sparsebnPath class
sparsebnUtils sparsebnUtils: Utilities for the sparsebn package.
specify.prior Build a black list based on prior knowledge
summary.edgeList edgeList class
summary.sparsebnData sparsebnData class
summary.sparsebnFit sparsebnFit class
summary.sparsebnPath sparsebnPath class

-- T --

to_bn Conversion between graph types
to_edgeList Conversion to edgeList object
to_edgeList.sparsebnFit Conversion to edgeList object
to_graphNEL Conversion between graph types
to_igraph Conversion between graph types
to_network Conversion between graph types

-- Z --

zero_threshold Utility functions