The "binda" package implements functions for multi-class discriminant analysis using binary predictors, for corresponding variable selection, and for dichotomizing continuous data.
Gibb, S., and K. Strimmer. 2015. Differential protein expression and peak selection in mass spectrometry data by binary discriminant analysis. Bioinformatics 31:3156-3162. <DOI:10.1093/bioinformatics/btv334>