gap: Genetic Analysis Package
As first reported [Zhao, J. H. 2007. "gap: Genetic Analysis Package". J Stat Soft 23(8):1-18. <doi:10.18637/jss.v023.i08>], it is designed as an integrated package for genetic data analysis of both population and family data. Currently, it contains functions for sample size calculations of both population-based and family-based designs, probability of familial disease aggregation, kinship calculation, statistics in linkage analysis, and association analysis involving genetic markers including haplotype analysis with or without environmental covariates. Over years, the package has been developed in-between many projects hence also in line with the name (gap).
| Version: | 1.6 |
| Depends: | R (≥ 2.10), gap.datasets (≥ 0.0.6) |
| Imports: | dplyr, ggplot2, plotly, Rdpack |
| Suggests: | BradleyTerry2, DiagrammeR, DOT, MASS, Matrix, MCMCglmm, R2jags, bdsmatrix, bookdown, calibrate, circlize, coda, cowplot, coxme, foreign, genetics, grid, haplo.stats, htmlwidgets, jsonlite, kinship2, knitr, lattice, magic, manhattanly, matrixStats, meta, metafor, nlme, pedigree, pedigreemm, plotrix, readr, reshape, rmarkdown, rms, survival, valr |
| Enhances: | shiny |
| Published: | 2024-08-27 |
| DOI: | 10.32614/CRAN.package.gap |
| Author: | Jing Hua Zhao |
| Maintainer: | Jing Hua Zhao <jinghuazhao at hotmail.com> |
| BugReports: | https://github.com/jinghuazhao/R/issues |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| URL: | https://github.com/jinghuazhao/R |
| NeedsCompilation: | yes |
| Citation: | gap citation info |
| Materials: | README ChangeLog |
| In views: | MetaAnalysis |
| CRAN checks: | gap results |
Documentation:
| Reference manual: | gap.pdf |
| Vignettes: |
gap (source, R code) Shiny for Genetic Analysis Package (gap) Designs (source) gap: genetic analysis package (source) |
Downloads:
| Package source: | gap_1.6.tar.gz |
| Windows binaries: | r-devel: gap_1.6.zip, r-release: gap_1.6.zip, r-oldrel: gap_1.6.zip |
| macOS binaries: | r-release (arm64): gap_1.6.tgz, r-oldrel (arm64): gap_1.6.tgz, r-release (x86_64): gap_1.6.tgz, r-oldrel (x86_64): gap_1.6.tgz |
| Old sources: | gap archive |
Reverse dependencies:
| Reverse imports: | BayesianTools, DHARMa, FamAgg, PopGenReport, pould |
| Reverse suggests: | rehh |
Linking:
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