Other packages > Find by keyword >

polymapR  

Linkage Analysis in Outcrossing Polyploids
View on CRAN: Click here


Download and install polymapR package within the R console
Install from CRAN:
install.packages("polymapR")

Install from Github:
library("remotes")
install_github("cran/polymapR")

Install by package version:
library("remotes")
install_version("polymapR", "1.1.7")



Attach the package and use:
library("polymapR")
Maintained by
Peter Bourke
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2017-12-05
Latest Update: 2024-05-31
Description:
Creation of linkage maps in polyploid species from marker dosage scores of an F1 cross from two heterozygous parents. Currently works for outcrossing diploid, autotriploid, autotetraploid and autohexaploid species, as well as segmental allotetraploids. Methods are described in a manuscript of Bourke et al. (2018) . Since version 1.1.0, both discrete and probabilistic genotypes are acceptable input; for more details on the latter see Liao et al. (2021) .
How to cite:
Peter Bourke (2017). polymapR: Linkage Analysis in Outcrossing Polyploids. R package version 1.1.7, https://cran.r-project.org/web/packages/polymapR. Accessed 08 Aug. 2026.
Previous versions and publish date:
(2026-07-09 06:42), 1.0.11 (2017-12-05 19:39), 1.0.12 (2017-12-14 13:32), 1.0.13 (2018-02-13 19:07), 1.0.14 (2018-03-27 21:05), 1.0.15 (2018-04-13 11:04), 1.0.16 (2018-04-13 13:15), 1.0.17 (2018-08-24 16:30), 1.0.18 (2018-11-01 23:20), 1.0.19 (2019-02-01 16:00), 1.0.20 (2019-12-12 23:00), 1.1.0 (2020-07-16 00:30), 1.1.1 (2020-12-17 18:10), 1.1.2 (2021-03-09 16:20), 1.1.3 (2023-03-13 18:20), 1.1.4 (2023-11-04 20:10), 1.1.5 (2024-01-08 22:30), 1.1.6 (2024-05-31 15:50)
Other packages that cited polymapR R package
View polymapR citation profile
Other R packages that polymapR depends, imports, suggests or enhances
Complete documentation for polymapR
Functions, R codes and Examples using the polymapR R package
Some associated functions: ALL_dosages . LGHomDf_P1_1 . MDSMap_from_list . P1_SxS_Assigned . P1_homologues . PCA_progeny . SNSN_LOD_deviations . SN_SN_P1 . add_dup_markers . all_linkages_list_P1 . assign_SN_SN . assign_linkage_group . bridgeHomologues . calcSegtypeInfo . checkF1 . check_map . check_marker_assignment . check_maxP . chk1 . cluster_SN_markers . cluster_per_LG . compare_maps . consensus_LG_assignment . consensus_LG_names . convert_marker_dosages . convert_polyRAD . convert_updog . correctDosages . createTetraOriginInput . create_phased_maplist . define_LG_structure . exampleRAD_mapping . finish_linkage_analysis . get_markertype_combinations . gp_df . gp_overview . gp_vignette_data . homologue_lg_assignment . integrated.maplist . linkage.gp . linkage . map1 . map2 . map3 . maplist_P1 . marker_binning . marker_data_summary . merge_homologues . mout . overviewSNlinks . p4_functions . parental_quantities . phase_SN_diploid . phased.maplist . plot_hom_vs_LG . plot_map . plot_phased_maplist . polymapR-package . r2_functions . r3_functions . r4_functions . r6_functions . r_LOD_plot . screen_for_NA_values . screen_for_duplicate_individuals.gp . screen_for_duplicate_individuals . screen_for_duplicate_markers . test_prefpairing . write.TSNPM . write.mct . write.pwd . write_nested_list . write_pwd_list . 
Some associated R codes: aiding_functions.R . exported_functions.R . p4_functions.R . polymapR-package.R . r2_functions.R . r3_functions.R . r4_functions.R . r6_functions.R . roxygen_datasets.R .  Full polymapR package functions and examples
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

nextGenShinyApps  
Craft Exceptional 'R Shiny' Applications and Dashboards with Novel Responsive Tools
Nove responsive tools for designing and developing 'Shiny' dashboards and applications. The scripts ...
Download / Learn more Package Citations See dependency  
box  
Write Reusable, Composable and Modular R Code
A modern module system for R. Organise code into hierarchical, composable, reusable modules, and us ...
Download / Learn more Package Citations See dependency  
FastGaSP  
Fast and Exact Computation of Gaussian Stochastic Process
Implements fast and exact computation of Gaussian stochastic process with the Matern kernel using fo ...
Download / Learn more Package Citations See dependency  
productplots  
Product Plots for R
Framework for visualising tables of counts, proportions and probabilities. The framework is called ...
Download / Learn more Package Citations See dependency  
skewt  
The Skewed Student-t Distribution
Density, distribution function, quantile function and random generation for the skewed t distributio ...
Download / Learn more Package Citations See dependency  
Morpho  
Calculations and Visualisations Related to Geometric Morphometrics
A toolset for Geometric Morphometrics and mesh processing. This includes (among other stuff) mesh d ...
Download / Learn more Package Citations See dependency  

28,083

R Packages

239,283

Dependencies

74,752

Author Associations

28,084

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA