Machine Learning Predicts the Yeast Metabolome from the Quantitative Proteome of Kinase Knockouts

Zelezniak et al. Cell Systems. 2018.

Code repository for reproducing main analyses and figures of the study

Viewing code and results

Main results presented in R notebooks with corresponding analyses are named FigureN.Rmd where N is figure number as per manuscript. To view rendered figures directly on github, simply open FigureN.md.

To download code with data

Clone the repository from the command line:

$ git clone https://github.com/zelezniak-lab/kinase_metabolism.git

Figures R notebooks with corresponding analyses are named FigureN.Rmd where N is figure number as per manuscript. Open in Rstudio and run the corresponding analyses.

Dependencies

Most of the R notebook code chunks should work solely using tidyverse package. There are however places where additional functions called from the following packages: gridExtra, reshape2, RColorBrewer, ggthemes, cluster, ggrepel. Please see sessionInfo() output at the end each FigureN.md for more information.

If you have additional questions please contact me via email or best if you open an issue directly on github. You can find my email on our group's research page: http://www.zelezniaklab.org