Pedixplorer
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see Pedixplorer.
Pedigree Functions
Bioconductor version: 3.19
Routines to handle family data with a Pedigree object. The initial purpose was to create correlation structures that describe family relationships such as kinship and identity-by-descent, which can be used to model family data in mixed effects models, such as in the coxme function. Also includes a tool for Pedigree drawing which is focused on producing compact layouts without intervention. Recent additions include utilities to trim the Pedigree object with various criteria, and kinship for the X chromosome.
Author: Louis Le Nézet [aut, cre] 
, Jason Sinnwell [aut], Terry Therneau [aut], Daniel Schaid [ctb], Elizabeth Atkinson [ctb], Louis Le Nezet [ctb]
Maintainer: Louis Le Nézet <louislenezet at gmail.com>
citation("Pedixplorer")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Pedixplorer")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("Pedixplorer")| Pedigree alignment details | HTML | R Script |
| Pedigree kinship() details | HTML | R Script |
| Pedigree object | HTML | R Script |
| Pedigree plotting details | HTML | R Script |
| Pedixplorer tutorial | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Alignment, DataRepresentation, Genetics, Software |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.19 (R-4.4) (< 6 months) |
| License | Artistic-2.0 |
| Depends | R (>= 4.3.0) |
| Imports | graphics, stats, methods, ggplot2, utils, grDevices, stringr, plyr, dplyr, tidyr, quadprog, Matrix, S4Vectors, testthat |
| System Requirements | |
| URL | https://github.com/LouisLeNezet/Pedixplorer |
| Bug Reports | https://github.com/LouisLeLezet/Pedixplorer/issues |
See More
| Suggests | diffviewer, vdiffr, rmarkdown, BiocStyle, knitr, withr, magick |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | Pedixplorer_1.0.0.tar.gz |
| Windows Binary (x86_64) | Pedixplorer_1.0.0.zip |
| macOS Binary (x86_64) | Pedixplorer_1.0.0.tgz |
| macOS Binary (arm64) | Pedixplorer_1.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/Pedixplorer |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Pedixplorer |
| Bioc Package Browser | https://code.bioconductor.org/browse/Pedixplorer/ |
| Package Short Url | https://bioconductor.org/packages/Pedixplorer/ |
| Package Downloads Report | Download Stats |