gtex_colors: Colors for plotting GTEx data

In flashier: Empirical Bayes Matrix Factorization

Colors for plotting GTEx data

Description

A custom palette used by Wang and Stephens (2021) to plot an empirical Bayes matrix factorization of data from the GTEx project (of which the gtex data in package flashier is a subsample). The palette is designed to link similar tissues together visually. For example, brain tissues all have the same color (yellow); arterial tissues are shades of pink or red; etc.

Format

gtex_colors is a named vector of length 44, with names corresponding to tissues (columns) in the gtex dataset and values giving hexadecimal color codes.

Source

<https://github.com/stephenslab/gtexresults/blob/master/data/GTExColors.txt>

References

Wei Wang and Matthew Stephens (2021). "Empirical Bayes matrix factorization." Journal of Machine Learning Research 22, 1–40.

Examples

fl <- flash(gtex, greedy_Kmax = 4)
plot(fl, incl_scree = FALSE, pm_colors = gtex_colors)

flashier documentation built on Oct. 17, 2023, 5:07 p.m.