empirical p-values for glmnet multivariate results

[mschubert]

prerequesites

• [x] map all scores to specific set of pathways
• [x] use same pathway set input for glmnet

kinds of models

• [x] pathways
• [x] mutations and pathways as one input (to compare mut to pathways)
• [x] mutations + pathways (as in, formula syntax - to compare which pathways add most on top)

generation of null models

• [x] null models: 100 repetitions, shuffled labels
• [x] null models: 1000 repetitions, shuffled labels
• [x] real model: one repetition

calc

• [x] empirical p-values for models
• [ ] bar plots for best models (as defined with p-val)