aa.prop.list            Amino Acid Properties
calcPairwiseIdentity    Functions Related to Sequence Alignment
chi.norm                A Transformation of Chi-squared Random Variable
cloud9                  9-Component Mixture Dirichlet Prior for Protein
                        Sequences
dmdirichlet             Functions related to mixture Dirichlet
                        distribution
getSeqKernel            Protein Sequence Kernels
hmmMargLlik             Functions related to profile HMM
krm                     Kernel-based Regression Models
krm.most                Kernel-based Regression Model Maximum of
                        adjusted Score Test
krm.score.test          Adjusted Score Test
readFastaFile           Read a Fasta Sequence File
sim.liu.2008            Simulate sDataset
