formatPHResults {DAPAR} | R Documentation |
Extract logFC and raw pvalues from multiple post-hoc models summaries
formatPHResults(post_hoc_models_summaries)
post_hoc_models_summaries |
a list of summaries of post-hoc models. |
a list of 2 dataframes containing the logFC values and pvalues for each comparison.
Hélène Borges
utils::data(Exp1_R25_prot, package='DAPARdata') obj <- Exp1_R25_prot[1:1000] keepThat <- mvFilterGetIndices(obj, condition='WholeMatrix', threshold=ncol(obj)) obj <- mvFilterFromIndices(obj, keepThat) anova_tests <- t(apply(Biobase::exprs(obj),1, classic1wayAnova, conditions=as.factor(Biobase::pData(obj)$Condition))) names(anova_tests) <- rownames(Biobase::exprs(obj)) tms <- lapply(anova_tests, function(x) summary(multcomp::glht(x, linfct = multcomp::mcp(conditions = "Tukey")), test = multcomp::adjusted("none"))) res <- formatPHResults(tms)