JonesSDC3PhosphoproteomicsPaper

Bayesian modelling code for Jones et al. 2020.

Requirements

• Julia language v0.5.2
• CmdStan

Julia Package Requirements

• FileIO
• JLD
• DataFrames
• Stan
• Mamba
• Distributions

Usage

Running:

> julia importing.jl

will split the Progenesis.csv data file into subsets for each of the four initial comparisons

Then:

> julia progenesis-processing.jl

will perform linear regression for missing value imputation and differential expression for each of the four initial comparisons.

Finally:

> julia fcdifference.jl

uses the results form the previous step to calculate the results for comparison #5 (difference in fold-changes).