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: | 3.2.0 |
| 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 (≥ 1.0.0) |
| Suggests: | knitr (≥ 1.10), rmarkdown, testthat, stringr |
| Published: | 2025-01-10 |
| DOI: | 10.32614/CRAN.package.onemap |
| Author: | Gabriel Margarido [aut], Marcelo Mollinari [aut], Cristiane Taniguti [ctb, cre], Getulio Ferreira [ctb], Rodrigo Amadeu [ctb], Jeekin Lau [ctb], Karl Broman [ctb], Katharine Preedy [ctb, cph] (MDS ordering algorithm), Bastian Schiffthaler [ctb, cph] (HMM parallelization), Augusto Garcia [aut, ctb] |
| Maintainer: | Cristiane Taniguti <cht47 at cornell.edu> |
| BugReports: | https://github.com/Cristianetaniguti/onemap/issues |
| License: | GPL-3 |
| URL: | https://github.com/cristianetaniguti/onemap |
| NeedsCompilation: | yes |
| Citation: | onemap citation info |
| In views: | Agriculture |
| CRAN checks: | onemap results [issues need fixing before 2025-01-25] |
| Reference manual: | onemap.pdf |
| Vignettes: |
Inbred Based Populations (source, R code) Introduction to R (source, R code) Outcrossing Populations (source, R code) Overview (source, R code) |
| Package source: | onemap_3.2.0.tar.gz |
| Windows binaries: | r-devel: onemap_3.2.0.zip, r-release: onemap_3.2.0.zip, r-oldrel: onemap_3.2.0.zip |
| macOS binaries: | r-release (arm64): onemap_3.2.0.tgz, r-oldrel (arm64): onemap_3.2.0.tgz, r-release (x86_64): onemap_3.2.0.tgz, r-oldrel (x86_64): onemap_3.2.0.tgz |
| Old sources: | onemap archive |
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