kmeans_by_selected_cols: Perform kmeans of a dataset using just data in selected...

In TeamMacLean/pepdiff: Analysing TSL PRM Peptide Data

Perform kmeans of a dataset using just data in selected columns, then return matrices of all columns

Description

Perform kmeans of a dataset using just data in selected columns, then return matrices of all columns

Usage

kmeans_by_selected_cols(
  l,
  cols = NULL,
  log = TRUE,
  base = 2,
  sig_only = TRUE,
  sig_level = 0.05,
  metric = "bootstrap_t_p_val",
  k = NA,
  nstart = 25,
  itermax = 1000
)

Arguments

l	list of results, usually from 'compare_many()'
cols	names of columns to perform the k-means with
log	whether to log the data
base	base used in logging (default = 2)
sig_only	return only rows with 1 or more values significant at 'sig_level' of 'metric'
sig_level	significance level cutoff
metric	the test metric used to determine significance one of: 'bootstrap_t_p_val', 'bootstrap_t_fdr' 'wilcoxon_p_val', 'wilcoxon_fdr' 'kruskal_p_val', 'kruskal_fdr' 'rank_prod_p1_p_val', 'rank_prod_p2_p_val', 'rank_prod_p1_fdr', 'rank_prod_p2_fdr'.
k	number of clusters to make
nstart	nstart value for 'kmeans()'
itermax	number of 'kmeans()' iterations (1000)

Value

list of matrices

TeamMacLean/pepdiff documentation built on April 24, 2023, 7:48 a.m.