How to use names and rownames of a dataframe for the aes of ggplot?
Whenever using ggplot you should have your data in long format:
enrichment_df[ "day" ] <- rownames(enrichment_df)df.molten <- melt( enrichment_df, id.vars="day", value.name="Enrichment", variable.name="Antibiotics" )head(df.molten) day Antibiotics Enrichment1 day1_day3__sham3_strict_enrichment meclocycline -0.8692 hour4_day1_day3__sham3_strict_enrichment meclocycline -0.2943 day7_day14__sham3_strict_enrichment meclocycline -0.333This can be plotted by
ggplot(df.molten, aes( x = Antibiotics, y = Enrichment, fill = day ) ) + geom_bar( position = "identity", stat = "identity", alpha = .3 )
I'm not sure though if position = "identity" with negative values is what you are looking for.