my_contest: applies contrast computation using lmerTest::contest function

In wolski/prolfqua: Proteomics Label Free Quantification

applies contrast computation using lmerTest::contest function

Description

applies contrast computation using lmerTest::contest function

Usage

my_contest(model, linfct, ddf = c("Satterthwaite", "Kenward-Roger"))

Arguments

linfct	linear function
ddf	method to determine denominator degrees of freedom
m	mixed effects model

See Also

Other modelling: Contrasts, ContrastsMissing, ContrastsModerated, ContrastsPlotter, ContrastsProDA, ContrastsROPECA, ContrastsTable, INTERNAL_FUNCTIONS_BY_FAMILY, LR_test(), Model, build_model(), contrasts_fisher_exact(), get_anova_df(), get_complete_model_fit(), get_p_values_pbeta(), isSingular_lm(), linfct_all_possible_contrasts(), linfct_factors_contrasts(), linfct_from_model(), linfct_matrix_contrasts(), merge_contrasts_results(), model_analyse(), model_summary(), moderated_p_limma(), moderated_p_limma_long(), my_contrast(), my_contrast_V1(), my_contrast_V2(), my_glht(), pivot_model_contrasts_2_Wide(), plot_lmer_peptide_predictions(), sim_build_models_lm(), sim_build_models_lmer(), sim_make_model_lm(), sim_make_model_lmer(), strategy_lmer(), summary_ROPECA_median_p.scaled()

Examples

mb <- sim_make_model_lmer("interaction")
summary(mb)

linfct <- linfct_from_model(mb)
names(linfct)
my_contest(mb, linfct$linfct_factors)
my_contest(mb, linfct$linfct_interactions)
if(require(multcomp)){
my_glht(mb, linfct$linfct_factors)
my_glht(mb, linfct$linfct_interactions)
}
length(mb@beta)
lmerTest::contest(mb, c( 0 ,1 , 0 , 0),joint = FALSE)
summary(mb)

wolski/prolfqua documentation built on Dec. 4, 2024, 11:18 p.m.