alignSeq                Align mutliple sequences
bhattacharyyaCoefficient
                        Bhattacharyya coefficient
bhattacharyyaMatrix     Bhattacharyya matrix
chordDiagramVDJ         Chord diagram of VJ or DJ gene associations
clonalRelatedness       Clonal relatedness
clonality               Clonality
cloneTrack              Clone tracking plot
commonSeqs              Common sequences in two or more samples
commonSeqsBar           Common sequences bar plot
commonSeqsPlot          Common sequences plot
commonSeqsVenn          Common sequences Venn diagram
differentialAbundance   Differential abundance analysis
exportFasta             Export sequences in fasta format
geneFreq                Gene frequencies
lorenzCurve             Lorenz curve
mergeFiles              Merge files
pairwisePlot            Pairwise comparison plot
phyloTree               Create phylogenetic tree
productive              Productive sequences
productiveSeq           Productive sequences
readImmunoSeq           Read ImmunoSeq files
removeSeq               Remove sequence
searchPublished         Search for T cell receptor beta CDR3 amino acid
                        sequences with known antigen specificity
searchSeq               Search for a sequence
seqMatrix               Sequence matrix
similarityMatrix        Similarity score matrix
similarityScore         Similarity score
topFreq                 Top frequencies
topSeqs                 Top sequences
topSeqsPlot             Cumulative frequency bar plot of top sequences
uniqueSeqs              Unique sequences
