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Combined generate_contrasts

Source: R/generatedContrastsDF.r
generate_contrasts.Rd

Combined generate_contrasts

Usage

generate_contrasts(primary_levels, secondary_levels, interactions = TRUE)

Arguments

primary_levels

character vector of primary factor levels

secondary_levels

character vector of secondary factor levels

interactions

logical, if TRUE include interaction contrasts

See also

Other contrasts: annotation_add_contrasts(), generate_contrasts_for_factor(), interaction_contrasts(), level_specific_contrasts(), main_effect_contrasts()

Examples

primary_levels <- c("MI", "MINOCAM")
secondary_levels <- c("T0", "T150", "T300")
generate_contrasts(primary_levels, secondary_levels)
#>                                                                        ContrastName
#> MINOCAM_vs_MI                                                         MINOCAM_vs_MI
#> MINOCAM_vs_MI_at_T0                                             MINOCAM_vs_MI_at_T0
#> MINOCAM_vs_MI_at_T150                                         MINOCAM_vs_MI_at_T150
#> MINOCAM_vs_MI_at_T300                                         MINOCAM_vs_MI_at_T300
#> interaction_MINOCAM_vs_MI_at_T150_vs_T0     interaction_MINOCAM_vs_MI_at_T150_vs_T0
#> interaction_MINOCAM_vs_MI_at_T300_vs_T0     interaction_MINOCAM_vs_MI_at_T300_vs_T0
#> interaction_MINOCAM_vs_MI_at_T300_vs_T150 interaction_MINOCAM_vs_MI_at_T300_vs_T150
#>                                                                                                                               Contrast
#> MINOCAM_vs_MI                             ( (G_MINOCAM_T0 + G_MINOCAM_T150 + G_MINOCAM_T300)/3 - (G_MI_T0 + G_MI_T150 + G_MI_T300)/3 )
#> MINOCAM_vs_MI_at_T0                                                                                             G_MINOCAM_T0 - G_MI_T0
#> MINOCAM_vs_MI_at_T150                                                                                       G_MINOCAM_T150 - G_MI_T150
#> MINOCAM_vs_MI_at_T300                                                                                       G_MINOCAM_T300 - G_MI_T300
#> interaction_MINOCAM_vs_MI_at_T150_vs_T0                                        (G_MINOCAM_T150 - G_MI_T150) - (G_MINOCAM_T0 - G_MI_T0)
#> interaction_MINOCAM_vs_MI_at_T300_vs_T0                                        (G_MINOCAM_T300 - G_MI_T300) - (G_MINOCAM_T0 - G_MI_T0)
#> interaction_MINOCAM_vs_MI_at_T300_vs_T150                                  (G_MINOCAM_T300 - G_MI_T300) - (G_MINOCAM_T150 - G_MI_T150)
generate_contrasts(secondary_levels, primary_levels)
#>                                                                        ContrastName
#> T150_vs_T0                                                               T150_vs_T0
#> T300_vs_T0                                                               T300_vs_T0
#> T300_vs_T150                                                           T300_vs_T150
#> T150_vs_T0_at_MI                                                   T150_vs_T0_at_MI
#> T150_vs_T0_at_MINOCAM                                         T150_vs_T0_at_MINOCAM
#> T300_vs_T0_at_MI                                                   T300_vs_T0_at_MI
#> T300_vs_T0_at_MINOCAM                                         T300_vs_T0_at_MINOCAM
#> T300_vs_T150_at_MI                                               T300_vs_T150_at_MI
#> T300_vs_T150_at_MINOCAM                                     T300_vs_T150_at_MINOCAM
#> interaction_T150_vs_T0_at_MINOCAM_vs_MI     interaction_T150_vs_T0_at_MINOCAM_vs_MI
#> interaction_T300_vs_T0_at_MINOCAM_vs_MI     interaction_T300_vs_T0_at_MINOCAM_vs_MI
#> interaction_T300_vs_T150_at_MINOCAM_vs_MI interaction_T300_vs_T150_at_MINOCAM_vs_MI
#>                                                                                                      Contrast
#> T150_vs_T0                                    ( (G_T150_MI + G_T150_MINOCAM)/2 - (G_T0_MI + G_T0_MINOCAM)/2 )
#> T300_vs_T0                                    ( (G_T300_MI + G_T300_MINOCAM)/2 - (G_T0_MI + G_T0_MINOCAM)/2 )
#> T300_vs_T150                              ( (G_T300_MI + G_T300_MINOCAM)/2 - (G_T150_MI + G_T150_MINOCAM)/2 )
#> T150_vs_T0_at_MI                                                                          G_T150_MI - G_T0_MI
#> T150_vs_T0_at_MINOCAM                                                           G_T150_MINOCAM - G_T0_MINOCAM
#> T300_vs_T0_at_MI                                                                          G_T300_MI - G_T0_MI
#> T300_vs_T0_at_MINOCAM                                                           G_T300_MINOCAM - G_T0_MINOCAM
#> T300_vs_T150_at_MI                                                                      G_T300_MI - G_T150_MI
#> T300_vs_T150_at_MINOCAM                                                       G_T300_MINOCAM - G_T150_MINOCAM
#> interaction_T150_vs_T0_at_MINOCAM_vs_MI               (G_T150_MINOCAM - G_T0_MINOCAM) - (G_T150_MI - G_T0_MI)
#> interaction_T300_vs_T0_at_MINOCAM_vs_MI               (G_T300_MINOCAM - G_T0_MINOCAM) - (G_T300_MI - G_T0_MI)
#> interaction_T300_vs_T150_at_MINOCAM_vs_MI         (G_T300_MINOCAM - G_T150_MINOCAM) - (G_T300_MI - G_T150_MI)