plot_model_summary: Plot model summary

In bhagwataditya/importomics: Unified statistal Modeling of Omics Data

Plot model summary

Description

Plot model summary

Usage

plot_model_summary(
  object,
  fit = rep(fits(object), times = length(coefs(object))),
  coef = rep(coefs(object), each = length(fits(object))),
  title = "",
  sub = "",
  xlab = "",
  ylab = "",
  nmax = NULL,
  cex.sub = 1.4
)

Arguments

object	SummarizedExperiment
fit	character vector (values : 'limma', 'lm', 'Lme', 'lmer', 'wilcoxon' )
coef	character vector
title	character(1)
sub	character(1)
xlab	character(1)
ylab	character(1)
nmax	integer(1)
cex.sub	number

Examples

# Read
    file <- system.file('extdata/atkin.metabolon.xlsx', package = 'autonomics')
    object <- read_metabolon(file)
# Block
    plot_model_summary(fit_wilcoxon(object),                    sub =           '~Time (wilcoxon)', nmax = 10)
    plot_model_summary(fit_wilcoxon(object, block = 'Subject'), sub = '~Time | Subject (wilcoxon)', nmax = 10)
    plot_model_summary(      fit_lm(object),                    sub =           '~Time (lm)',       nmax = 10)
    plot_model_summary(      fit_lm(object, block = 'Subject'), sub = '~Time | Subject (lm)',       nmax = 10)
    plot_model_summary(   fit_limma(object),                    sub =           '~Time (limma)',    nmax = 10)
    plot_model_summary(   fit_limma(object, block = 'Subject'), sub = '~Time | Subject (limma)',    nmax = 10)
# Engines
    plot_model_summary(fit_wilcoxon(object, block = 'Subject'), sub = 'Wilcoxon : ~Time | Subject', nmax = 10)
    plot_model_summary(      fit_lm(object, block = 'Subject'), sub =       'Lm : ~Time | Subject', nmax = 10)
    plot_model_summary(   fit_limma(object, block = 'Subject'), sub =    'Limma : ~Time | Subject', nmax = 10)
    plot_model_summary(     fit_lme(object, block = 'Subject'), sub =      'Lme : ~Time | Subject', nmax = 10)

bhagwataditya/importomics documentation built on June 15, 2024, 1:05 a.m.