addBlank	pfm-methods
addBlank,pfm,numeric,logical-method	pfm-methods
colorset	colorset
DNAmotifAlignment	DNAmotifAlignment
getIC	pfm-methods
getIC,matrix,numeric-method	pfm-methods
getIC,pfm,ANY-method	pfm-methods
matrixReverseComplement	pfm-methods
matrixReverseComplement,pfm-method	pfm-methods
pcm2pfm	pcm2pfm
pfm	pfm-methods
pfm-class	pfm-class
plot,pfm-method	pfm-methods
plotMotifLogo	plotMotifLogo
plotMotifLogoStack	plotMotifLogoStack
plotMotifLogoStackWithTree	plotMotifLogoStackWithTree
plotXaxis	plotXaxis
plotYaxis	plotYaxis
readPCM	readPCM
