View source: R/fct_03_clustering.R
heatmap_main | R Documentation |
Uses the package ComplexHeatmaps to draw a heatmap of the
processed data that has been prepared for the heatmap. The
returned heatmap visualizes the processed expression of the
gene range provided in process_heatmap_data()
.
heatmap_main(
data,
cluster_meth,
heatmap_cutoff,
sample_info,
select_factors_heatmap,
dist_funs,
dist_function,
hclust_function,
sample_clustering,
heatmap_color_select,
row_dend,
k_clusters,
re_run,
selected_genes
)
data |
Data matrix returned from |
cluster_meth |
Integer indicating which clustering method to use 1 for hierarchical and 2 for kmeans. |
heatmap_cutoff |
Numeric value for Z score max to filter data |
sample_info |
Matrix of experiment design information from load data |
select_factors_heatmap |
Factor group for annotation legend |
dist_funs |
List of distance functions to use in heatmap |
dist_function |
The selected distance function to use |
hclust_function |
Type of clustering to perform |
sample_clustering |
TRUE/FALSE Specify whether to cluster columns |
heatmap_color_select |
Vector of colors for heatmap scale |
row_dend |
TRUE/FALSE Hide row dendrogram, |
k_clusters |
Number of clusters to use for k-means |
re_run |
Integer for a seed to Re-run k-means with |
selected_genes |
Character list of genes to label on the heatmap |
Heatmap of the processed data.
dist_functions()
for available distance functions,
hcluster_functions()
for available functions for hierarchical
Other clustering functions:
cluster_heat_click_info()
,
draw_sample_tree()
,
heat_sub()
,
k_means_elbow()
,
process_heatmap_data()
,
sd_density()
,
sub_heat_ann()
Other heatmaps:
cluster_heat_click_info()
,
heat_sub()
,
process_heatmap_data()
,
sub_heat_ann()
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