Package: gtWAS 1.1.0

gtWAS: Genome and Transcriptome Wide Association Study

Quantitative trait loci mapping and genome wide association analysis are used to find candidate molecular marker or region associated with phenotype based on linkage analysis and linkage disequilibrium. Gene expression quantitative trait loci mapping is used to find candidate molecular marker or region associated with gene expression. In this package, we applied the method in Liu W. (2011) <doi:10.1007/s00122-011-1631-7> and Gusev A. (2016) <doi:10.1038/ng.3506> to genome and transcriptome wide association study, which is aimed at revealing the association relationship between phenotype and molecular markers, expression levels, molecular markers nested within different related expression effect and expression effect nested within different related molecular marker effect. F test based on full and reduced model are performed to obtain p value or likelihood ratio statistic. The best linear model can be obtained by stepwise regression analysis.

Authors:JunhuiLi WenxinLiu

gtWAS_1.1.0.tar.gz
gtWAS_1.1.0.zip(r-4.5)gtWAS_1.1.0.zip(r-4.4)gtWAS_1.1.0.zip(r-4.3)
gtWAS_1.1.0.tgz(r-4.4-any)gtWAS_1.1.0.tgz(r-4.3-any)
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gtWAS.pdf |gtWAS.html
gtWAS/json (API)

# Install 'gtWAS' in R:
install.packages('gtWAS', repos = c('https://junhuili1017.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Datasets:
  • Tdata - Phenotype data
  • alldata - Data including base and expression data

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

1.00 score 1 stars 6 scripts 111 downloads 4 exports 0 dependencies

Last updated 5 years agofrom:c3bbcb55de. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 30 2024
R-4.5-winOKOct 30 2024
R-4.5-linuxOKOct 30 2024
R-4.4-winOKOct 30 2024
R-4.4-macOKOct 30 2024
R-4.3-winOKOct 30 2024
R-4.3-macOKOct 30 2024

Exports:AssociationModelFitStepOnestp

Dependencies: