Genetic Linkage Maps in Autopolyploids

Construction of genetic maps in autopolyploid full-sib populations. Uses pairwise recombination fraction estimation as the first source of information to sequentially position allelic variants in specific homologs. For situations where pairwise analysis has limited power, the algorithm relies on the multilocus likelihood obtained through a hidden Markov model (HMM). For more detail, please see Mollinari and Garcia (2019) and Mollinari et al. (2020) .


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install.packages("mappoly")

0.2.0 by Marcelo Mollinari, 12 days ago


https://github.com/mmollina/MAPpoly


Report a bug at https://github.com/mmollina/MAPpoly/issues


Browse source code at https://github.com/cran/mappoly


Authors: Marcelo Mollinari [aut, cre] , Gabriel Gesteira [aut] , Guilhereme Pereira [ctb] , Augusto Garcia [ctb] , Zhao-Bang Zeng [ctb] , Katharine Preedy [ctb, cph] (MDS ordering algorithm) , Robert Gentleman [cph] (C code for MLE optimization in src/pairwise_estimation.cpp) , Ross Ihaka [cph] (C code for MLE optimization in src/pairwise_estimation.cpp) , R Foundation [cph] (C code for MLE optimization in src/pairwise_estimation.cpp) , R-core [cph] (C code for MLE optimization in src/pairwise_estimation.cpp)


Documentation:   PDF Manual  


GPL-3 license


Imports Rcpp, RCurl, plotly, fields, ggpubr, ggsci, rstudioapi, plot3D, memuse, dplyr, crayon, cli, magrittr, reshape2, ggplot2, smacof, princurve, dendextend, vcfR

Suggests testthat, RColorBrewer, updog, covr, polymapR

Linking to Rcpp

System requirements: C++11


See at CRAN