%>%	pipe
.jsd	dot-jsd
add_flank_to_variants	add_flank_to_variants
add_variant_type	add_variant_type
annotate_replication_strand	annotate_replication_strand
annotate_transcript_strand	annotate_transcript_strand
annotate_variant_length	annotate_variant_length
annotate_variant_type	annotate_variant_type
auto_predict_grid	auto_predict_grid
auto_subset_sigs	auto_subset_sigs
build_custom_table	build_custom_table
build_standard_table	build_standard_table
combine_count_tables	combine_count_tables
combine_predict_grid	combine_predict_grid
compare_cosmic_v2	compare_cosmic_v2
compare_cosmic_v3	compare_cosmic_v3
compare_results	compare_results
cosmic_v2_sigs	cosmic_v2_sigs
cosmic_v2_subtype_map	cosmic_v2_subtype_map
cosmic_v3_dbs_sigs	cosmic_v3_dbs_sigs
cosmic_v3_indel_sigs	cosmic_v3_indel_sigs
cosmic_v3_sbs_sigs	cosmic_v3_sbs_sigs
cosmic_v3_sbs_sigs_exome	cosmic_v3_sbs_sigs_exome
count_table-class	count_table-class
create_dbs_table	create_dbs_table
create_musica	create_musica
create_sbs192_table	create_sbs192_table
create_sbs96_table	create_sbs96_table
create_umap	create_umap
dbs_musica	dbs_musica
discover_signatures	discover_signatures
drop_annotation	drop_annotation
exposures	exposures
exposures,musica_result-method	exposures
exposures<-	exposures
exposures<-,musica_result,matrix-method	exposures
extract_count_tables	extract_count_tables
extract_variants	extract_variants
extract_variants_from_maf	extract_variants_from_maf
extract_variants_from_maf_file	extract_variants_from_maf_file
extract_variants_from_matrix	extract_variants_from_matrix
extract_variants_from_vcf	extract_variants_from_vcf
extract_variants_from_vcf_file	extract_variants_from_vcf_file
generate_result_grid	generate_result_grid
indel_musica	indel_musica
musica	musica
musica,musica_result-method	musica
musica-class	musica-class
musica_annot	musica_annot
musica_result-class	musica_result-class
musica_result_grid-class	musica_result_grid-class
musica_sbs96	musica_sbs96
musica_sbs96_tiny	musica_sbs96_tiny
name_signatures	name_signatures
plot_exposures	plot_exposures
plot_sample_counts	plot_sample_counts
plot_sample_reconstruction_error	plot_sample_reconstruction_error
plot_signatures	plot_signatures
plot_umap	plot_umap
predict_exposure	predict_exposure
rc	rc
rep_range	rep_range
res	res
res_annot	res_annot
sample_names	sample_names
sample_names,musica-method	sample_names
sample_names,musica_result-method	sample_names
samp_annot	samp_annot
samp_annot,musica-method	samp_annot
samp_annot,musica_result-method	samp_annot
samp_annot<-	samp_annot
samp_annot<-,musica,character,vector-method	samp_annot
samp_annot<-,musica_result,character,vector-method	samp_annot
select_genome	select_genome
signatures	signatures
signatures,musica_result-method	signatures
signatures<-	signatures
signatures<-,musica_result,matrix-method	signatures
subset_musica_by_annotation	subset_musica_by_annotation
subset_musica_by_counts	subset_musica_by_counts
subset_variants_by_samples	subset_variants_by_samples
subset_variant_by_type	subset_variant_by_type
tables	tables
tables,musica-method	tables
tables,musica_result-method	tables
tables<-	tables
tables<-,musica,list-method	tables
table_96	table_96
table_name	table_name
table_name,musica_result-method	table_name
umap	umap
umap,musica_result-method	umap
umap<-	umap
umap<-,musica_result,matrix-method	umap
variants	variants
variants,musica-method	variants
variants,musica_result-method	variants
variants<-	variants
variants<-,musica,data.table-method	variants
