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gap  

Genetic Analysis Package
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("gap", "1.6")



Attach the package and use:
library("gap")
Maintained by
Jing Hua Zhao
[Scholar Profile | Author Map]
First Published: 2004-01-14
Latest Update: 2023-08-26
Description:
As first reported [Zhao, J. H. 2007. "gap: Genetic Analysis Package". J Stat Soft 23(8):1-18. ], 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).
How to cite:
Jing Hua Zhao (2004). gap: Genetic Analysis Package. R package version 1.6, https://cran.r-project.org/web/packages/gap. Accessed 20 Feb. 2025.
Previous versions and publish date:
0.3 (2004-01-14 08:11), 0.4 (2004-01-18 21:41), 0.5 (2004-01-22 15:04), 0.7 (2004-02-02 19:47), 0.8-2 (2004-08-17 08:19), 0.8-3 (2004-12-21 21:42), 0.8 (2004-02-29 10:05), 1.0-1 (2005-04-10 23:12), 1.0-2 (2005-04-15 08:50), 1.0-3 (2005-07-24 15:32), 1.0-5 (2006-01-17 11:14), 1.0-6 (2006-02-13 12:05), 1.0-8 (2006-04-04 10:57), 1.0-9 (2006-09-21 17:37), 1.0-10 (2007-01-05 14:21), 1.0-11 (2007-06-14 08:29), 1.0-12 (2007-07-31 19:45), 1.0-13 (2007-10-02 10:39), 1.0-14 (2008-03-02 14:51), 1.0-15 (2008-04-10 18:25), 1.0-17 (2009-01-02 19:12), 1.0-20 (2009-08-26 16:29), 1.0-21 (2009-11-22 17:20), 1.0-22 (2010-01-02 14:16), 1.0-23 (2010-06-25 07:46), 1.1-0 (2010-11-17 17:04), 1.1-1 (2010-12-10 16:02), 1.1-2 (2011-05-03 17:27), 1.1-3 (2011-12-06 18:09), 1.1-6 (2012-03-15 09:12), 1.1-8 (2013-02-26 16:37), 1.1-9 (2013-04-08 12:31), 1.1-10 (2013-09-30 17:40), 1.1-12 (2014-08-18 16:56), 1.1-13 (2015-06-03 14:38), 1.1-14 (2015-06-04 20:42), 1.1-16 (2015-06-06 08:56), 1.1-17 (2017-04-19 13:10), 1.1-20 (2017-11-25 17:55), 1.1-21 (2018-01-24 12:40), 1.1-22 (2018-06-08 18:58), 1.2.1 (2019-06-05 14:00), 1.2.2 (2020-02-02 16:10), 1.2.3-1 (2021-04-21 11:40), 1.2.3-6 (2022-05-14 00:10), 1.3-1 (2022-10-21 14:25), 1.4-2 (2023-01-09 19:00), 1.5-1 (2023-01-22 22:40), 1.5-3 (2023-08-26 16:10), 1.5 (2023-01-13 10:20)
Other packages that cited gap R package
View gap citation profile
Other R packages that gap depends, imports, suggests or enhances
Complete documentation for gap
Functions, R codes and Examples using the gap R package
Some associated functions: AE3 . BFDP . ESplot . FPRP . KCC . LD22 . LDkl . MCMCgrm . METAL_forestplot . ReadGRM . ReadGRMBin . SNP . WriteGRM . WriteGRMBin . a2g . ab . allele.recode . asplot . b2r . bt . ccsize . chow.test . chr_pos_a1_a2 . ci2ms . circos.cis.vs.trans.plot . circos.cnvplot . circos.mhtplot . circos.mhtplot2 . cis.vs.trans.classification . cnvplot . comp.score . cs . fbsize . g2a . gap . gc.em . gc.lambda . gcontrol . gcontrol2 . gcp . genecounting . geno.recode . get_b_se . get_pve_se . get_sdy . gif . grid2d . h2.jags . h2G . h2GE . h2_mzdz . h2l . hap.control . hap.em . hap . hap.score . hg18 . hg19 . hg38 . hmht.control . htr . hwe.cc . hwe.hardy . hwe.jags . hwe . inv_chr_pos_a1_a2 . invnormal . ixy . kin.morgan . klem . labelManhattan . log10p . log10pvalue . logp . makeped . masize . metap . metareg . mht.control . mhtplot . mhtplot.trunc . mhtplot2 . mia . miamiplot . miamiplot2 . mr . mr_forestplot . mtdt . mtdt2 . muvar . mvmeta . pbsize . pbsize2 . pedtodot . pedtodot_verbatim . pfc . pfc.sim . pgc . plot.hap.score . print.hap.score . pvalue . qqfun . qqunif . qtl2dplot . qtl2dplotly . qtl3dplotly . qtlClassifier . read.ms.output . revStrand . runshinygap . s2k . sentinels . snptest_sample . tscc . whscore . xy . 
Some associated R codes: 2ld.R . AE3.R . BFDP.R . ESplot.R . FPRP.R . KCC.R . MCMCgrm.R . METAL_forestplot.R . SNP.R . ab.R . asplot.R . b2r.R . bt.R . ccsize.R . chow.test.R . chrs.R . circos.cis.vs.trans.plot.R . circos.cnvplot.R . circos.mhtplot.R . circos.mhtplot2.R . cis.vs.trans.classification.R . cnvplot.R . comp.score.R . cs.R . fbsize.R . gap-internal.R . gap.R . gc.em.R . gc.lambda.R . gcontrol.R . gcontrol2.R . gcp.R . genecounting.R . get_b_se.R . get_pve_se.R . get_sdy.R . gif.R . h2.jags.R . h2G.R . h2GE.R . h2_mzdz.R . h2l.R . hap.R . hap.control.R . hap.em.R . hap.score.R . hapfun.R . htr.R . hwe.R . hwe.cc.R . hwe.hardy.R . hwe.jags.R . invnormal.R . kin.morgan.R . labelManhattan.R . log10p.R . log10pvalue.R . logp.R . makeRLEplots.R . makeped.R . masize.R . metap.R . metareg.R . mhtplot.R . mhtplot.trunc.R . mhtplot2.R . mia.R . miamiplot.R . miamiplot2.R . mr.R . mr_forestplot.R . mtdt.R . mtdt2.R . muvar.R . mvmeta.R . onload.R . pbsize.R . pbsize2.R . pedtodot.R . pedtodot_verbatim.R . pfc.R . pfc.sim.R . pgc.R . pvalue.R . qqfun.R . qqunif.R . qtl2dplot.R . qtl2dplotly.R . qtl3dplotly.R . qtlClassifier.R . read.ms.output.R . revStrand.R . runshinygap.R . s2k.R . sentinels.R . snpid.R . snptest_sample.R . tscc.R . utils.R . whscore.R .  Full gap package functions and examples
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