R: Cancer Rule Set Optimization ('crso')

# Cancer Rule Set Optimization ('crso')

## Documentation for package ‘crso’ version 0.1.1

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

buildRuleLibrary | Make full rule library of all rules that satisfy minimum coverage threshold.
evaluateListOfIMs | Evaluate list of rule set matrices
getBestRsList | Get list of best rule sets of size K for all K
getCoreK | Determine core K from phase 3 tpl and til
getCoreRS | Get core rules from phase 3 tpl and til
getGCDs | Get Generalized Core Duos
getGCEs | Get Generalized Core Events
getGCRs | Get Generalized Core Rules
getPoolSizes | Get pool sizes for phase 2
getRulesAsStrings | Represent binary rule matrix as strings
makeFilteredImList | Make filtered im list from phase 3 im list
makePhaseOneOrderedRM | Order rules according to phase one importance ranking
makePhaseThreeImList | Make phase 3 im list from phase 2 im list
makePhaseTwoImList | Output list of top rule sets for each k in 1:k.max
makeSubCoreList | Get list of core rules from random subsets of samples
skcm.list | Example data set derived from TCGA skin cutaneous melanoma (SKCM) data.