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onemap: Construction of Genetic Maps in Experimental Crosses

Analysis of molecular marker data from model (backcrosses, F2 and recombinant inbred lines) and non-model systems (i. e. outcrossing species). For the later, it allows statistical analysis by simultaneously estimating linkage and linkage phases (genetic map construction) according to Wu et al. (2002) <doi:10.1006/tpbi.2002.1577>. All analysis are based on multipoint approaches using hidden Markov models.

Version: 3.0.0
Depends: R (≥ 3.6.0)
Imports: ggplot2 (≥ 2.2.1), plotly (≥ 4.7.1), reshape2 (≥ 1.4.1), Rcpp (≥ 0.10.5), graphics, methods, stats, utils, grDevices, smacof, princurve, parallel, dplyr, tidyr, htmlwidgets, ggpubr, RColorBrewer, dendextend, rebus, vcfR (≥ 1.6.0)
LinkingTo: Rcpp (≥ 0.10.5)
Suggests: knitr (≥ 1.10), rmarkdown, testthat, stringr
Published: 2022-11-26
DOI: 10.32614/CRAN.package.onemap
Author: Gabriel Margarido [aut], Marcelo Mollinari [aut], Cristiane Taniguti [ctb, cre], Getulio Ferreira [ctb], Rodrigo Amadeu [ctb], Karl Broman [ctb], Katharine Preedy [ctb, cph] (MDS ordering algorithm), Bastian Schiffthaler [ctb, cph] (HMM parallelization), Augusto Garcia [aut, ctb]
Maintainer: Cristiane Taniguti <chtaniguti at tamu.edu>
BugReports: https://github.com/augusto-garcia/onemap/wiki
License: GPL-3
URL: https://github.com/augusto-garcia/onemap
NeedsCompilation: yes
Citation: onemap citation info
In views: Agriculture
CRAN checks: onemap results

Documentation:

Reference manual: onemap.pdf
Vignettes: Inbred Based Populations
Introduction to R
Outcrossing Populations
Overview

Downloads:

Package source: onemap_3.0.0.tar.gz
Windows binaries: r-devel: onemap_3.0.0.zip, r-release: onemap_3.0.0.zip, r-oldrel: onemap_3.0.0.zip
macOS binaries: r-release (arm64): onemap_3.0.0.tgz, r-oldrel (arm64): onemap_3.0.0.tgz, r-release (x86_64): onemap_3.0.0.tgz, r-oldrel (x86_64): onemap_3.0.0.tgz
Old sources: onemap archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=onemap to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.