jokergoo/cola
A Framework for Consensus Partitioning

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jokergoo/cola: A Framework for Consensus Partitioning
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API for jokergoo/cola
A Framework for Consensus Partitioning

Global functions
.consensus_partition Source code
.hierarchical_partition Source code
.onAttach Source code
.onLoad Source code
ATC Man page Source code
ATC_approx Man page Source code
ATC_single_test Source code
ConsensusPartition Man page
ConsensusPartition-class Man page
ConsensusPartitionList Man page
ConsensusPartitionList-class Man page
DownSamplingConsensusPartition Man page
DownSamplingConsensusPartition-class Man page
Extract.ConsensusPartitionList Man page
Extract.HierarchicalPartition Man page
ExtractExtract.ConsensusPartitionList Man page
ExtractExtract.HierarchicalPartition Man page
FCC Man page Source code
Ftest Source code
HierarchicalPartition Man page
HierarchicalPartition-class Man page
PAC Man page Source code
PAC2 Source code
PAC_old Source code
[.ConsensusPartitionList Man page
[.HierarchicalPartition Man page
[[.ConsensusPartitionList Man page
[[.HierarchicalPartition Man page
aPAC Man page Source code
adjust_matrix Man page Source code
adjust_outlier Man page Source code
all_leaves Man page
all_leaves,HierarchicalPartition-method Man page
all_nodes Man page
all_nodes,HierarchicalPartition-method Man page
all_partition_methods Man page Source code
all_top_value_methods Man page Source code
cal_diff_ratio_r Source code
calc_dend Source code
check_pkg Source code
cl_consensus2 Source code
cl_membership2 Source code
cola Man page Source code
cola_opt Man page Source code
cola_report Man page
cola_report,ConsensusPartition-method Man page
cola_report,ConsensusPartitionList-method Man page
cola_report,HierarchicalPartition-method Man page
cola_rl Man page
collect_classes Man page
collect_classes,ConsensusPartition-method Man page
collect_classes,ConsensusPartitionList-method Man page
collect_classes,HierarchicalPartition-method Man page
collect_plots Man page
collect_plots,ConsensusPartition-method Man page
collect_plots,ConsensusPartitionList-method Man page
collect_stats Man page
collect_stats,ConsensusPartition-method Man page
collect_stats,ConsensusPartitionList-method Man page
colnames Man page
colnames,ConsensusPartition-method Man page
colnames,ConsensusPartitionList-method Man page
colnames,DownSamplingConsensusPartition-method Man page
colnames,HierarchicalPartition-method Man page
column_order_by_group Source code
compare_partitions Man page
compare_partitions,ConsensusPartition-method Man page
compare_signatures Man page
compare_signatures,ConsensusPartition-method Man page
compare_signatures,HierarchicalPartition-method Man page
compare_to_subgroup Source code
concordance Man page Source code
config_ATC Man page Source code
consensus_heatmap Man page
consensus_heatmap,ConsensusPartition-method Man page
consensus_partition Man page Source code
consensus_partition_by_down_sampling Man page Source code
convert_to_DownSamplingConsensusPartition Source code
cophcor Source code
cor_spearman Source code
correspond_between_rankings Man page Source code
correspond_between_two_rankings Man page Source code
david_enrichment Man page Source code
dend_node_apply Source code
dim.ConsensusPartition Man page Source code
dim.ConsensusPartitionList Man page Source code
dim.DownSamplingConsensusPartition Man page Source code
dim.HierarchicalPartition Man page Source code
dimension_reduction Man page
dimension_reduction,ConsensusPartition-method Man page
dimension_reduction,DownSamplingConsensusPartition-method Man page
dimension_reduction,HierarchicalPartition-method Man page
dimension_reduction,matrix-method Man page
edit_node Source code
elbow_finder Source code
entropy Source code
expand_dimension_reduction_plot Source code
find_best_km Man page Source code
find_top_n Source code
functional_enrichment Man page
functional_enrichment,ANY-method Man page
functional_enrichment,ConsensusPartition-method Man page
functional_enrichment,ConsensusPartitionList-method Man page
functional_enrichment,HierarchicalPartition-method Man page
get_anno Man page
get_anno,ConsensusPartition-method Man page
get_anno,ConsensusPartitionList-method Man page
get_anno,DownSamplingConsensusPartition-method Man page
get_anno,HierarchicalPartition-method Man page
get_anno_col Man page
get_anno_col,ConsensusPartition-method Man page
get_anno_col,ConsensusPartitionList-method Man page
get_anno_col,HierarchicalPartition-method Man page
get_children Source code
get_children_nodes Man page
get_children_nodes,HierarchicalPartition-method Man page
get_classes Man page
get_classes,ConsensusPartition-method Man page
get_classes,ConsensusPartitionList-method Man page
get_classes,DownSamplingConsensusPartition-method Man page
get_classes,HierarchicalPartition-method Man page
get_consensus Man page
get_consensus,ConsensusPartition-method Man page
get_consensus_from_multiple_methods Source code
get_consensus_matrix Source code
get_hierarchy_dend Source code
get_hierarchy_table Source code
get_matrix Man page
get_matrix,ConsensusPartition-method Man page
get_matrix,ConsensusPartitionList-method Man page
get_matrix,DownSamplingConsensusPartition-method Man page
get_matrix,HierarchicalPartition-method Man page
get_membership Man page
get_membership,ConsensusPartition-method Man page
get_membership,ConsensusPartitionList-method Man page
get_nc Source code
get_param Man page
get_param,ConsensusPartition-method Man page
get_partition_method Source code
get_signatures Man page
get_signatures,ConsensusPartition-method Man page
get_signatures,DownSamplingConsensusPartition-method Man page
get_signatures,HierarchicalPartition-method Man page
get_stats Man page
get_stats,ConsensusPartition-method Man page
get_stats,ConsensusPartitionList-method Man page
get_top_value_method Source code
golub_cola Man page
golub_cola_ds Man page
golub_cola_rh Man page
guess_best_km Source code
guess_id_mapping Source code
guess_id_type Source code
has_hierarchy Source code
hierarchical_partition Man page Source code
is_best_k Man page
is_best_k,ConsensusPartition-method Man page
is_best_k,ConsensusPartitionList-method Man page
is_leaf_node Man page
is_leaf_node,HierarchicalPartition-method Man page
is_stable_k Man page
is_stable_k,ConsensusPartition-method Man page
is_stable_k,ConsensusPartitionList-method Man page
knee_finder Source code
knee_finder2 Man page Source code
knitr_add_tab_item Man page Source code
knitr_insert_tabs Man page Source code
make_report Source code
map_to_entrez_id Man page Source code
max_depth Man page
max_depth,HierarchicalPartition-method Man page
mean_group_dist Source code
membership_heatmap Man page
membership_heatmap,ConsensusPartition-method Man page
merge_into_two_groups Source code
merge_node Man page
merge_node,HierarchicalPartition-method Man page
merge_node_param Man page Source code
merge_single Source code
multicore_supported Source code
ncol Man page
ncol,ConsensusPartition-method Man page
ncol,ConsensusPartitionList-method Man page
ncol,DownSamplingConsensusPartition-method Man page
ncol,HierarchicalPartition-method Man page
node_info Man page
node_info,HierarchicalPartition-method Man page
node_level Man page
node_level,HierarchicalPartition-method Man page
nrow Man page
nrow,ConsensusPartition-method Man page
nrow,ConsensusPartitionList-method Man page
nrow,HierarchicalPartition-method Man page
one_vs_others Source code
os_type Source code
pamr Source code
pdist Source code
plot_ecdf Man page
plot_ecdf,ConsensusPartition-method Man page
predict_classes Man page
predict_classes,ConsensusPartition-method Man page
predict_classes,matrix-method Man page
predict_classes_by_ml Source code
print.hc_table_suggest_best_k Man page Source code
random_dend Source code
recalc_stats Man page Source code
register_ATC_kNN Source code
register_NMF Man page Source code
register_SOM Man page Source code
register_kmeanspp Source code
register_partition_methods Man page Source code
register_top_value_methods Man page Source code
relabel_class Man page Source code
remove_partition_methods Man page Source code
remove_top_value_methods Man page Source code
reorder_hierarchy Source code
rowATC Source code
rownames Man page
rownames,ConsensusPartition-method Man page
rownames,ConsensusPartitionList-method Man page
rownames,HierarchicalPartition-method Man page
run_all_consensus_partition_methods Man page Source code
samr Source code
select_jaccard_cutoff Source code
select_partition_number Man page
select_partition_number,ConsensusPartition-method Man page
set_counter Source code
show Man page
show,ConsensusPartition-method Man page
show,ConsensusPartitionList-method Man page
show,DownSamplingConsensusPartition-method Man page
show,HierarchicalPartition-method Man page
split_node Man page
split_node,HierarchicalPartition-method Man page
stability Source code
subgroup_dend Source code
suggest_best_k Man page
suggest_best_k,ConsensusPartition-method Man page
suggest_best_k,ConsensusPartitionList-method Man page
suggest_best_k,HierarchicalPartition-method Man page
test_between_factors Man page Source code
test_to_known_factors Man page
test_to_known_factors,ConsensusPartition-method Man page
test_to_known_factors,ConsensusPartitionList-method Man page
test_to_known_factors,DownSamplingConsensusPartition-method Man page
test_to_known_factors,HierarchicalPartition-method Man page
top_elements_overlap Man page Source code
top_rows_heatmap Man page
top_rows_heatmap,ConsensusPartition-method Man page
top_rows_heatmap,ConsensusPartitionList-method Man page
top_rows_heatmap,HierarchicalPartition-method Man page
top_rows_heatmap,matrix-method Man page
top_rows_overlap Man page
top_rows_overlap,ConsensusPartitionList-method Man page
top_rows_overlap,HierarchicalPartition-method Man page
top_rows_overlap,matrix-method Man page
try_and_trace Source code
ttest Source code
use_methylation Source code
use_scRNASeq Source code
zero_height_dend Source code
jokergoo/cola documentation built on Feb. 7, 2025, 8:33 a.m.

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