Package: vivaldi 1.0.1

David Gresham

vivaldi: Viral Variant Location and Diversity

Analysis of minor alleles in Illumina sequencing data of viral genomes. Functions in 'vivaldi' primarily operate on vcf files.

Authors:Marissa Knoll [aut], Katherine Johnson [aut], Megan Hockman [aut], Eric Borenstein [aut], Mohammed Khalfan [aut], Elodie Ghedin [aut], David Gresham [aut, cre, cph]

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vivaldi.pdf |vivaldi.html✨
vivaldi/json (API)

Peer review:

Bug tracker:https://github.com/greshamlab/vivaldi/issues

On CRAN:

20 exports 3 stars 1.40 score 83 dependencies 6 scripts 246 downloads

Last updated 7 months agofrom:dcc628ac3f. Checks:OK: 7. Indexed: yes.

Exports:add_metadataaf_distributionarrange_datadNdS_segmentfilter_variantsmerge_replicatesplot_shannonposition_allele_freqprepare_annotationsread_reference_fasta_dnashannon_entropyshared_snv_plotshared_snv_tablesnpeff_infosnv_genomesnv_locationsnv_segmenttally_ittstv_plottstv_ratio

Dependencies:ade4apeaskpassbase64encbslibcachemcliclustercolorspacecpp11crosstalkcurldata.tabledigestdplyrevaluatefansifarverfastmapfontawesomefsgenericsggplot2gluegtablehighrhtmltoolshtmlwidgetshttrisobandjquerylibjsonliteknitrlabelinglaterlatticelazyevallifecyclemagrittrMASSMatrixmemoisememusemgcvmimemunsellnlmeopensslpermutepillarpinfsc50pixmappkgconfigplotlypromisespurrrR6rappdirsRColorBrewerRcppRcppArmadillorlangrmarkdownsassscalessegmentedseqinrspstringistringrsystibbletidyrtidyselecttinytexutf8vcfRvctrsveganviridisLitewithrxfunyaml