BinMat: Processes Binary Data Obtained from Fragment Analysis

A molecular genetics tool that processes binary data from fragment analysis, such as inter-simple sequence repeats (ISSRs) and amplified fragment length polymorphism (AFLP). It consolidates replicate sample pairs, outputs summary statistics, and produces hierarchical clustering trees and nMDS plots. This package was developed from the M.Sc. thesis entitled "A genetic analysis of the species and intraspecific lineages of Dactylopius Costa (Hemiptera:Dactylopiidae)" (van Steenderen, 2019, Rhodes University, Department of Zoology and Entomology, Center for Biological Control (CBC) <https://www.ru.ac.za/centreforbiologicalcontrol/>, Grahamstown, South Africa), <doi:10.13140/RG.2.2.28470.86083>. The GUI version of this package is available on the R Shiny online server at: <https://clarkevansteenderen.shinyapps.io/BINMAT/> , or it is accessible via GitHub by typing: shiny::runGitHub("BinMat", "CJMvS") into the console in R. Please see the vignette supplied with the package for a worked example, and detailed explanations of functions.

Version: 0.1.2
Depends: R (≥ 3.0)
Imports: pvclust (≥ 2.0), magrittr, MASS (≥ 7.3), stats (≥ 3.4.0), graphics (≥ 3.4.0), base (≥ 3.4.0)
Suggests: knitr, rmarkdown
Published: 2020-03-06
Author: Clarke van Steenderen ORCID iD [aut, cre]
Maintainer: Clarke van Steenderen <vsteenderen at gmail.com>
License: GPL-3
NeedsCompilation: no
CRAN checks: BinMat results

Downloads:

Reference manual: BinMat.pdf
Vignettes: BinMat
Package source: BinMat_0.1.2.tar.gz
Windows binaries: r-devel: BinMat_0.1.2.zip, r-release: BinMat_0.1.2.zip, r-oldrel: BinMat_0.1.2.zip
macOS binaries: r-release (arm64): BinMat_0.1.2.tgz, r-release (x86_64): BinMat_0.1.2.tgz, r-oldrel: BinMat_0.1.2.tgz
Old sources: BinMat archive

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