run_contrasts_twofactor

Generate contrasts for a two-factor design

Description

Reads an annotation file and adds ContrastName/Contrast columns using annotation_add_contrasts.

Usage

run_contrasts_twofactor(annotation_file, f1, f2, interactions = TRUE)

Arguments

annotation_file path to annotation CSV/TSV/XLSX

f1 primary factor column name

f2 secondary factor column name

interactions logical; include interaction contrasts? Default TRUE.

Value

data.frame with ContrastName and Contrast columns added

Examples

library("prolfquapp")

csv <- system.file("application/contrasts/scenario2_two_factor.csv",
  package = "prolfquapp")
result <- run_contrasts_twofactor(csv, f1 = "treatment", f2 = "time")
unique(result[!is.na(result$ContrastName), c("ContrastName", "Contrast")])

# A tibble: 4 × 2
  ContrastName                           Contrast                               
  <chr>                                  <chr>                                  
1 MINOCA_vs_MI                           (G_MINOCA_T0 + G_MINOCA_T150)/2 - (G_M…
2 MINOCA_vs_MI_at_T0                     G_MINOCA_T0 - G_MI_T0                  
3 MINOCA_vs_MI_at_T150                   G_MINOCA_T150 - G_MI_T150              
4 interaction_MINOCA_vs_MI_at_T150_vs_T0 (G_MINOCA_T150 - G_MI_T150) - (G_MINOC…