Viral Variant Location and Diversity
add_metadata
af_distribution
arrange_data
dNdS_segment
filter_variants
merge_replicates
plot_shannon
position_allele_freq
prepare_annotations
read_reference_fasta_dna
shannon_entropy
shared_snv_plot
shared_snv_table
snpeff_info
snv_genome
snv_location
snv_segment
tally_it
tstv_plot
tstv_ratio
Analysis of minor alleles in Illumina sequencing data of viral genomes. Functions in 'vivaldi' primarily operate on vcf files.