Package: longreadvqs
Title: Viral Quasispecies Comparison from Long-Read Sequencing Data
Version: 0.1.2
Authors@R: person("Nakarin", "Pamornchainavakul", email = "pamornakarin@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-0378-0316"))
Description: Performs variety of viral quasispecies diversity analyses [see Gregori et al. (2016) <doi:10.1016/j.virol.2016.03.017>] based on long-read sequence alignment. Main functions include 1) sequencing error minimization and read sampling, 2) Single nucleotide variant (SNV) profiles comparison, and 3) viral quasispecies profiles comparison and visualization. 
License: GPL-3
URL: https://github.com/NakarinP/longreadvqs
BugReports: https://github.com/NakarinP/longreadvqs/issues
Encoding: UTF-8
RoxygenNote: 7.3.1
biocViews:
Imports: ape, Biostrings, cowplot, dplyr, ggplot2, ggpubr, grDevices,
        magrittr, plyr, purrr, QSutils, RColorBrewer, reshape2, scales,
        seqinr, stats, stringdist, stringr, tibble, tidyr
Depends: R (>= 2.10)
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
NeedsCompilation: no
Packaged: 2024-04-12 18:53:33 UTC; nakarinpamornchainavakul
Author: Nakarin Pamornchainavakul [aut, cre]
    (<https://orcid.org/0000-0003-0378-0316>)
Maintainer: Nakarin Pamornchainavakul <pamornakarin@gmail.com>
Repository: CRAN
Date/Publication: 2024-04-14 19:20:02 UTC
