gtWAS-package: Genome and Transcriptome Wide Association Study

In gtWAS: Genome and Transcriptome Wide Association Study

Description

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. Expression quantitative trait loci mapping is used to find candidate molecular marker or region associated with gene expression. This package is aimed at revealing the association relationship between phenotype and molecular markers, expression levels, molecular markers with different related expression levels and expression levels with different related molecular marker. 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.

Details

Package:	gtWAS
Type:	Package
Version:	1.1.0
Date:	2019-06-01
License:	GPL (>= 2)

Author(s)

JunhuiLi WeninLiu

Maintainer: JunhuiLi<[e-mail]>

References

Junhui Li, Haixiao Hu, Yujie Meng, Kun Cheng, Guoliang Li, Wenxin Liu, and Shaojiang Chen.(2016)Pleiotropic QTL detection for stalk traits in maize and related R package programming. Journal of China Agricultural University. DOI 10.11841/j.issn.1007-4333.2016.06.00

Liu W., Maurer H.P., Reif J.C., Melchinger A.E., Utz F., Tucker M.R., Ranc N., Della Porta G., Wurschum T. (2013) Optimum Design of Family Structure and Allocation of Resources in Association Mapping with Lines from Multiple Crosses. Heredity 110: 71-79

Gusev, A., Ko, A., Shi, H., Bhatia, G., Chung, W., & Penninx, B. W., et al. (2016). Integrative approaches for large-scale transcriptome-wide association studies. Nature Genetics, 48(3), 245.

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Judge, & GeorgeG. (1985). The Theory and practice of econometrics /-2nd ed. The Theory and practice of econometrics /. Wiley.

Mcquarrie, A. D. R., & Tsai, C. L. (1998). Regression and Time Series Model Selection. Regression and time series model selection /. World Scientific.

Sawa, T. (1978). Information criteria for discriminating among alternative regression models. Econometrica, 46(6), 1273-1291.

Schwarz, G. (1978). Estimating the dimension of a model. Annals of Statistics, 6(2), pags. 15-18.

gtWAS documentation built on June 1, 2019, 5:02 p.m.