[R] boxplot options

https://r-charts.com/distribution/boxplot-function/

 

pdf(paste0(fname, "_non_vs_normalized.pdf"))
par(mar=c(1, 4, 2, 1))
par(mfrow = c(2, 1))

boxplot(log_ndds, notch=TRUE,
        main = "Non-normalized read counts",
        ylab="log2(read counts + 1)", names=NA,
        cex = .2, col = meta$color, border = 8, medcol = 3,
        outlwd = 0.5, boxlwd = 0.1, whisklwd =0.2)

boxplot(log_dds, notch=TRUE, 
        main = "Size-factor-normalized read counts",
        ylab="log2(read counts + 1)", names=NA,
        cex = .2, col = meta$color, border = 8, medcol = 3,
        outlwd = 0.5, boxlwd = 0.1, whisklwd =0.2)

dev.off()

 

- mar=c(bottom, left, top, right)

- names : tick label

- cex : size of outlier

- border : border color 

- medcol : medium point color

- outlwd : outlier line width

- boxlwd : box line width

- whisklwd : whisker line width