statRes_output: Function to take raw output of 'imd_anova' and create output...

In pmartR: Panomics Marketplace - Quality Control and Statistical Analysis for Panomics Data

Function to take raw output of 'imd_anova' and create output for 'statRes' object

Description

Function to take raw output of 'imd_anova' and create output for 'statRes' object

Usage

statRes_output(
  imd_anova_out,
  omicsData,
  comparisons,
  test_method,
  pval_adjust_a_multcomp,
  pval_adjust_g_multcomp,
  pval_adjust_a_fdr,
  pval_adjust_g_fdr,
  pval_thresh
)

Arguments

imd_anova_out	data frame containing the results of the imd_anova call.
omicsData	pmartR data object of any class, which has a 'group_df' attribute that is usually created by the 'group_designation()' function
comparisons	character vector of comparison names, e.g. c("A_vs_B", "B_vs_C", ...)
test_method	test method used ("anova", "gtest", or "combined")
pval_adjust_a_multcomp	character string specifying which type of multiple comparison adjustment was implemented for ANOVA tests. Valid options include: "bonferroni", "holm", "tukey", and "dunnett".
pval_adjust_g_multcomp	character string specifying which type of multiple comparison adjustment was implemented for G-tests. Valid options include: "bonferroni" and "holm".
pval_adjust_a_fdr	character string specifying which type of FDR adjustment was implemented for ANOVA tests. Valid options include: "bonferroni", "BH", "BY", and "fdr".
pval_adjust_g_fdr	character string specifying which type of FDR adjustment was implemented for G-tests. Valid options include: "bonferroni", "BH", "BY", and "fdr".
pval_thresh	numeric p-value threshold value

Value

object of class statRes

pmartR documentation built on Oct. 15, 2024, 1:06 a.m.