plot_densities {autonomics} | R Documentation |
Plot sample/feature densities
plot_densities( object, group, fill, color = NULL, fixed = list(alpha = 0.5, na.rm = TRUE) ) plot_sample_densities( object, fill = sample_id, color = NULL, group = sample_id, fixed = list(alpha = 0.5, na.rm = TRUE), subsetter = if (ncol(object) < 100) { seq_len(ncol(object)) } else { sample(ncol(object), 9) } ) plot_feature_densities( object, fill = feature_id, color = NULL, group = feature_id, fixed = list(alpha = 0.5, na.rm = TRUE), subsetter = if (nrow(object) < 100) { seq_len(nrow(object)) } else { sample(nrow(object), 9) } )
object |
SummarizedExperiment |
group |
svar mapped to group |
fill |
svar mapped to fill |
color |
svar mapped to color |
fixed |
fixed aesthetics |
subsetter |
subsetter for showing a subset of samples/features |
ggplot object
plot_sample_violins
,
plot_sample_boxplots
# Read data require(magrittr) file <- download_data('atkin18.metabolon.xlsx') object <- read_metabolon(file, plot = FALSE) object %<>% extract(, order(.$Group)) # Plot distributions plot_sample_densities(object, fill = Group) plot_feature_densities(object)