ConsensusPartition-class {cola} | R Documentation |
The ConsensusPartition class
The ConsensusPartition-class
has following methods:
consensus_partition
:constructor method, run consensus partition with a specified top-value method and a partition method.
select_partition_number,ConsensusPartition-method
:make a list of plots to select optimized number of partitions.
consensus_heatmap,ConsensusPartition-method
:make heatmap of the consensus matrix.
membership_heatmap,ConsensusPartition-method
:make heatmap of the membership in every random sampling.
get_signatures,ConsensusPartition-method
:get the signature rows and make heatmap.
dimension_reduction,ConsensusPartition-method
:make dimension reduction plots.
collect_plots,ConsensusPartition-method
:make heatmaps for consensus matrix and membership matrix with different number of partitions.
collect_classes,ConsensusPartition-method
:make heatmap of classes with different numbers of partitions.
get_param,ConsensusPartition-method
:get parameters for the consensus clustering.
get_matrix,ConsensusPartition-method
:get the original matrix.
get_consensus,ConsensusPartition-method
:get the consensus matrix.
get_membership,ConsensusPartition-method
:get the membership in random samplings.
get_stats,ConsensusPartition-method
:get metrics for the consensus clustering.
get_classes,ConsensusPartition-method
:get the consensus class IDs and other columns.
suggest_best_k,ConsensusPartition-method
:guess the best number of partitions.
test_to_known_factors,ConsensusPartition-method
:test correlation between predicted classes and known factors, if available.
cola_report,ConsensusPartition-method
:generate a HTML report for the whole analysis.
functional_enrichment,ConsensusPartition-method
:perform functional 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