Package: QSutils
Type: Package
Title: Quasispecies Diversity
Version: 1.2.0
Date: 2018-04-06
Author: Mercedes Guerrero-Murillo and Josep Gregori i Font
Maintainer: Mercedes Guerrero-Murillo <mergumu@gmail.com>
Depends: R (>= 3.5), Biostrings, BiocGenerics,methods
Imports: ape, stats, psych
Encoding: UTF-8
Description: Set of utility functions for viral quasispecies analysis with NGS data. Most functions are equally useful for metagenomic studies. There are three main types: (1) data manipulation and exploration—functions useful for converting reads to haplotypes and frequencies, repairing reads, intersecting strand haplotypes, and visualizing haplotype alignments. (2) diversity indices—functions to compute diversity and entropy, in which incidence, abundance, and functional indices are considered. (3) data simulation—functions useful for generating random viral quasispecies data.
License: file LICENSE
biocViews: Software, Genetics, DNASeq, GeneticVariability, Sequencing,
        Alignment, SequenceMatching, DataImport
VignetteBuilder: knitr
Suggests: BiocStyle, knitr, rmarkdown, ggplot2
NeedsCompilation: no
Packaged: 2019-05-03 05:31:59 UTC; biocbuild
RoxygenNote: 6.0.1
git_url: https://git.bioconductor.org/packages/QSutils
git_branch: RELEASE_3_9
git_last_commit: b22533c
git_last_commit_date: 2019-05-02
Date/Publication: 2019-05-02
Built: R 3.6.0; ; 2019-05-03 14:12:34 UTC; windows
