plot_volcano {autonomics} | R Documentation |
Plot volcano
plot_volcano( object, fit = intersect(names(metadata(object)), TESTS)[1], contrastdefs = autonomics::contrastdefs(object)[[1]], label = feature_name, ntop = 1 )
object |
SummarizedExperiment |
fit |
'limma', 'lme', 'lm', 'wilcoxon' |
contrastdefs |
contrastdef vector / matrix / list |
label |
fvar for labeling top features |
ntop |
number: n top features to be annotated |
ggplot object
file <- download_data('fukuda20.proteingroups.txt') object <- read_proteingroups(file, fit='limma', plot=FALSE) plot_volcano(object)