nb_summary: Summarize results from a forest. Plot trees together.

In netboost: Network Analysis Supported by Boosting

Description

Summarize results from a forest. Plot trees together.

Usage

nb_summary(clust_res)

Arguments

clust_res

Clustering results from cut_trees call.

Value

List

Examples

data('tcga_aml_meth_rna_chr18',  package='netboost')
 cores <- as.integer(getOption('mc.cores', 2))
 datan <- as.data.frame(scale(tcga_aml_meth_rna_chr18, center=TRUE,
 scale=TRUE))
 filter <- nb_filter(datan=datan, stepno=20L, until=0L, progress=1000L,
 cores=cores,mode=2L)
 dist <- nb_dist(datan=datan, filter=filter, soft_power=3L, cores=cores)
 max_singleton = dim(tcga_aml_meth_rna_chr18)[2]
 forest <- nb_mcupgma(filter=filter,dist=dist,max_singleton=max_singleton,
 cores=cores)
 trees <- tree_search(forest)
 results <- cut_trees(trees=trees,datan=datan, forest=forest,
 min_cluster_size=10L, ME_diss_thres=0.25, qc_plot=FALSE)
 sum_res <- nb_summary(clust_res=results)

netboost documentation built on Nov. 8, 2020, 4:58 p.m.