Functional Genome-wide Association Study


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Documentation for package ‘fGWAS’ version 0.3.5

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fg.adjust.inflation Adjusting the p-values based on the LR distribution
fg.get.pca Calculating PCA matrix using PLINK software
fg.load.phenotype Loading phenotypic data
fg.load.plink Loading PLINK data set.
fg.load.simple Loading simple SNP file
fg.qqplot Drawing QQ plot for the fGWAS results.
fg.select.sigsnp Selecting significant SNPs
fg.simulate Data Simulation
fg.snpscan Detecting significant SNPs by fGWAS model
plot.fgwas.curve Plotting the genetic curve effects associated with SNP.
plot.fgwas.phe.obj Ploting the longitudinal curves
plot.fgwas.scan.obj Drawing Manhattan plot
print.fgwas.gen.obj Printing brief information for the genotype object
print.fgwas.phe.obj Printing brief information for the phenotype object
print.fgwas.scan.obj Printing the significant SNPs or top SNPs.
summary.fgwas.gen.obj Summarizing genotype object
summary.fgwas.phe.obj Summarizing phenotype object.
summary.fgwas.scan.obj Summarizing the result object