Extensible Markov Model (EMM) for Data Stream Clustering in R


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Documentation for package ‘rEMM’ version 0.1-2

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16S Count Data for 16S rRNA Sequences
Alphaproteobacteria16S Count Data for 16S rRNA Sequences
build Building an EMM using New Data
build-method Building an EMM using New Data
current_state Class "EMMLayer"
current_state-method Class "EMMLayer"
Derwent Derwent Catchment Data
EMM Class "EMM"
EMM-class Class "EMM"
EMMLayer-class Class "EMMLayer"
EMMsim Synthetic Data to Demonstrate EMMs
EMMsim_sequence_test Synthetic Data to Demonstrate EMMs
EMMsim_sequence_train Synthetic Data to Demonstrate EMMs
EMMsim_test Synthetic Data to Demonstrate EMMs
EMMsim_train Synthetic Data to Demonstrate EMMs
EMMTraffic Hypothetical Traffic Data Set for EMM
fade Fading Cluster Structure and EMM Layer
fade-method Fading Cluster Structure and EMM Layer
find_states Find the EMM State/Cluster for an Observation
find_states-method Find the EMM State/Cluster for an Observation
initial_transition Access Transition Probabilities/Counts in an EMM
initial_transition-method Access Transition Probabilities/Counts in an EMM
merge_states Merge States of an EMM
merge_states-method Merge States of an EMM
Mollicutes16S Count Data for 16S rRNA Sequences
plot Visualize EMM Objects
plot-method Visualize EMM Objects
predict Predict a Future State
predict-method Predict a Future State
prune Prune States and/or Transitions
prune-method Prune States and/or Transitions
rare_states Prune States and/or Transitions
rare_states-method Prune States and/or Transitions
rare_transitions Prune States and/or Transitions
rare_transitions-method Prune States and/or Transitions
recluster Reclustering EMM states
recluster_hclust Reclustering EMM states
recluster_hclust-method Reclustering EMM states
recluster_kmeans Reclustering EMM states
recluster_kmeans-method Reclustering EMM states
recluster_pam Reclustering EMM states
recluster_pam-method Reclustering EMM states
remove_selftransitions Remove States/Clusters or Transitions from an EMM
remove_selftransitions-method Remove States/Clusters or Transitions from an EMM
remove_states Remove States/Clusters or Transitions from an EMM
remove_states-method Remove States/Clusters or Transitions from an EMM
remove_transitions Remove States/Clusters or Transitions from an EMM
remove_transitions-method Remove States/Clusters or Transitions from an EMM
reset Building an EMM using New Data
reset-method Building an EMM using New Data
score Score a New Sequence Given an EMM
score-method Score a New Sequence Given an EMM
show,EMM Class "EMM"
size Class "EMMLayer"
size-method Class "EMMLayer"
states Class "EMMLayer"
states-method Class "EMMLayer"
state_centers Class "tNN"
state_centers-method Class "tNN"
state_counts Class "tNN"
state_counts-method Class "tNN"
synthetic_stream Create a Synthetic Data Stream
tNN-class Class "tNN"
transition Access Transition Probabilities/Counts in an EMM
transition-method Access Transition Probabilities/Counts in an EMM
transitions Class "EMMLayer"
transitions-method Class "EMMLayer"
transition_matrix Access Transition Probabilities/Counts in an EMM
transition_matrix-method Access Transition Probabilities/Counts in an EMM
transition_table Extract a Transition Table for a New Sequence Given an EMM
transition_table-method Extract a Transition Table for a New Sequence Given an EMM