.quant_column_choice	dot-quant_column_choice
AA_PROP	aa_properties
aa_prop	aa_properties
aa_properties	aa_properties
AA_TABLE	aa_table
aa_table	aa_table
AA_TABLE_REVERSED	aa_table
add_class	add_class
add_pb	set_pb
apply_asymm	apply_symm
apply_symm	apply_symm
ATCHLEY	aa_properties
atchley	aa_properties
bcrdata	bcrdata
bunch_translate	bunch_translate
chao1	repDiversity
check_distribution	check_distribution
clonal.prop	repClonality
clonality	repClonality
clonal_proportion	repClonality
clonal_space_homeostasis	repClonality
coding	coding
cross_entropy	entropy
dbAnnotate	dbAnnotate
dbLoad	dbLoad
diversity_eco	repDiversity
entropy	entropy
exclude	repFilter
fixVis	fixVis
genes	gene_segments
geneUsage	geneUsage
geneUsageAnalysis	geneUsageAnalysis
GENE_SEGMENTS	gene_segments
gene_segments	gene_segments
gene_stats	gene_stats
get.kmers	getKmers
getKmers	getKmers
get_aliases	geneUsage
get_genes	geneUsage
gini_coef	repDiversity
gini_simpson	repDiversity
group_from_metadata	group_from_metadata
has_class	has_class
hill_numbers	repDiversity
immdata	immdata
immunarch_data_format	immunr_data_format
immunr_data_format	immunr_data_format
immunr_dbscan	immunr_hclust
immunr_hclust	immunr_hclust
immunr_kmeans	immunr_hclust
immunr_mds	immunr_pca
immunr_pca	immunr_pca
immunr_tsne	immunr_pca
include	repFilter
inc_overlap	inc_overlap
inframes	coding
interval	repFilter
inverse_simpson	repDiversity
js_div	entropy
KIDERA	aa_properties
kidera	aa_properties
kl_div	entropy
kmer_profile	split_to_kmers
lessthan	repFilter
makeKmerTable	getKmers
matrixdiagcopy	matrixdiagcopy
morethan	repFilter
noncoding	coding
outofframes	coding
process_col_argument	switch_type
properties	aa_properties
publicRepertoire	pubRep
publicRepertoireApply	pubRepApply
publicRepertoireFilter	pubRepFilter
public_matrix	public_matrix
pubRep	pubRep
pubRepApply	pubRepApply
pubRepFilter	pubRepFilter
pubRepStatistics	pubRepStatistics
rarefaction	repDiversity
rare_proportion	repClonality
repAlignLineage	repAlignLineage
repClonalFamily	repClonalFamily
repClonality	repClonality
repDiversity	repDiversity
repExplore	repExplore
repFilter	repFilter
repGermline	repGermline
repLoad	repLoad
repOverlap	repOverlap
repOverlapAnalysis	repOverlapAnalysis
repSample	repSample
repSave	repSave
repSomaticHypermutation	repSomaticHypermutation
scdata	scdata
segments	gene_segments
select_barcodes	select_barcodes
select_clusters	select_clusters
seqCluster	seqCluster
seqDist	seqDist
set_pb	set_pb
spectratype	spectratype
split_to_kmers	split_to_kmers
switch_type	switch_type
top	top
top_proportion	repClonality
trackClonotypes	trackClonotypes
translate_bunch	bunch_translate
vis	vis
vis.clonal_family	vis.clonal_family
vis.clonal_family_tree	vis.clonal_family_tree
vis.immunr_chao1	vis.immunr_chao1
vis.immunr_clonal_prop	vis.immunr_clonal_prop
vis.immunr_dbscan	vis.immunr_kmeans
vis.immunr_div	vis.immunr_chao1
vis.immunr_dxx	vis.immunr_chao1
vis.immunr_dynamics	vis.immunr_dynamics
vis.immunr_exp_clones	vis.immunr_exp_vol
vis.immunr_exp_count	vis.immunr_exp_vol
vis.immunr_exp_len	vis.immunr_exp_vol
vis.immunr_exp_vol	vis.immunr_exp_vol
vis.immunr_gene_usage	vis.immunr_gene_usage
vis.immunr_ginisimp	vis.immunr_chao1
vis.immunr_gu_matrix	vis.immunr_ov_matrix
vis.immunr_hclust	vis.immunr_hclust
vis.immunr_hill	vis.immunr_chao1
vis.immunr_homeo	vis.immunr_clonal_prop
vis.immunr_inc_overlap	vis.immunr_inc_overlap
vis.immunr_invsimp	vis.immunr_chao1
vis.immunr_kmeans	vis.immunr_kmeans
vis.immunr_kmer_table	vis.immunr_kmer_table
vis.immunr_mds	vis.immunr_mds
vis.immunr_ov_matrix	vis.immunr_ov_matrix
vis.immunr_pca	vis.immunr_mds
vis.immunr_public_repertoire	vis.immunr_public_repertoire
vis.immunr_public_statistics	vis.immunr_public_statistics
vis.immunr_rarefaction	vis.immunr_chao1
vis.immunr_tail_prop	vis.immunr_clonal_prop
vis.immunr_top_prop	vis.immunr_clonal_prop
vis.immunr_tsne	vis.immunr_mds
vis.step_failure_ignored	vis.step_failure_ignored
vis_bar	vis_bar
vis_box	vis_box
vis_circos	vis_circos
vis_heatmap	vis_heatmap
vis_heatmap2	vis_heatmap2
vis_hist	vis_hist
vis_immunr_kmer_profile_main	vis_immunr_kmer_profile_main
vis_public_clonotypes	vis_public_clonotypes
vis_public_frequencies	vis_public_frequencies
vis_seqlogo	vis_textlogo
vis_textlogo	vis_textlogo
