assocpair | Finding pairs of alignment positions that jointly mutate |
assocpairfeat | Finding pairs of sequence alignment positions associated with... |
assocpoint | Searches for associations of single alignment positions with... |
assocpointhierarchical | Searches for associations of single alignment positions with... |
assocpointpair | Compare results of SeqFeatRs assocpoint with SeqFeatRs... |
assoctuple | Searches for associations of a tuple of alignment positions... |
comparewithancestral | Compares ancestral sequence with sequence alignment |
foundereffectfinder | Tries to identify a founder effect in results from SeqFeatRs... |
getfreqs | Get frequencies for amino acids/nucleotides in alignment... |
orPlot | Visualize odds ratios and p-values from SeqFeatRs assocpoint |
q-values | Calculate q-values from p-values |
rewritetuple | Rewrite result from SeqFeatRs assoctuple |
SeqFeatR_GUI | GUI for SeqFeatR |
smallmanhattan | A small version of manhattan plot |
tartan | Visualize association of mutation pairs and features from two... |
visualizepair | Visualize pairs of alignment positions that jointly mutate |
visualizepairfeat | Visualize pairs of sequence alignment positions associated... |
volcanoplot | Create volcano plot |
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