ConsensusPartitionList-class {cola} | R Documentation |
The ConsensusPartitionList class
The object contains results from all combinations of top-value methods and partition methods.
The ConsensusPartitionList-class
provides following methods:
run_all_consensus_partition_methods
:constructor method.
top_rows_overlap,ConsensusPartitionList-method
:plot the overlaps of top rows under different top-value methods.
top_rows_heatmap,ConsensusPartitionList-method
:plot the heatmap of top rows under different top-value methods.
get_classes,ConsensusPartitionList-method
:get consensus class IDs merging from all methods.
get_matrix,ConsensusPartition-method
:get the original matrix.
get_stats,ConsensusPartitionList-method
:get metrics for a specified k.
get_membership,ConsensusPartitionList-method
:get consensus membership matrix summarized from all methods.
suggest_best_k,ConsensusPartitionList-method
:guess the best number of partitions for all methods.
collect_plots,ConsensusPartitionList-method
:collect plots from all combinations of top-value methods and partition methods with choosing a plotting function.
collect_classes,ConsensusPartitionList-method
:make a plot which contains predicted classes from all combinations of top-value methods and partition methods.
test_to_known_factors,ConsensusPartitionList-method
:test correlation between predicted classes and known annotations, if provided.
cola_report,ConsensusPartitionList-method
:generate a HTML report for the whole analysis.
GO_enrichment,ConsensusPartitionList-method
:perform GO enrichment analysis on significant genes if rows in the matrix can be corresponded to genes.
Zuguang Gu <z.gu@dkfz.de>
# There is no example NULL