fold_change_matrix: returns a matrix of fold change values
In TeamMacLean/pepdiff: Analysing TSL PRM Peptide Data

fold_change_matrix

R Documentation

returns a matrix of fold change values

Description

Computes the fold change relative to the control sample and returns a matrix with comparisons in columns and peptides in rows. Use this if you want data for a customised heatmap

Usage

fold_change_matrix(
  l,
  log = TRUE,
  base = 2,
  sig_only = FALSE,
  sig_level = 0.05,
  metric = "bootstrap_t_fdr"
)

Arguments

`l`	list of results, usually from 'compare_many()'
`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'.