statpng/sp.gwas
An integrated tool for an analysis of high-dimensional genomic data in Genome-Wide Association Study

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statpng/sp.gwas: An integrated tool for an analysis of high-dimensional genomic data in Genome-Wide Association Study
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An integrated tool for an analysis of high-dimensional genomic data in Genome-Wide Association Study

.Rbuildignore
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DESCRIPTION
Kunyan/SNPs=2684 _RILs=157/2684 SNPs_157RILs_genotype and phenotype data.xlsx
Kunyan/SNPs=2684 _RILs=157/RIL genotype.csv
Kunyan/SNPs=2684 _RILs=157/RIL phenotype.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[0]Impute_BeforeAfter.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[0]missing.sample.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[0]missing.snp.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]Data.RData
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]ImputeQC_myGD.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]ImputeQC_myGM.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]ImputeQC_myGT.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]ImputeQC_myX.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]Impute_myGD.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]Impute_myGM.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]Impute_myGT.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]Impute_myX.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]QC_myGD.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]QC_myGM.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]QC_myGT.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]QC_myX.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]import.hapamp_information.txt
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]myGD.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]myGM.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]myGT.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]myQC.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]myX.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[1]myY.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[2]sp.perm.results.RData
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[2]sp.res.RData
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[2]sp.results.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[2]sp.thresholds.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[2]sp.thresholds_before_perm.csv
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[3]GapPlot.pdf Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[3]PCoA.pdf
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[3]manhattan_enet_alpha0.5to0.9.jpeg
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[3]tSNE_Euclidean_perplexity=10.pdf Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[3]tSNE_Euclidean_perplexity=30.pdf Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[3]tSNE_Euclidean_perplexity=5.pdf Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[3]tSNE_Euclidean_perplexity=50.pdf
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/[4]information.txt
Kunyan/SNPs=2684 _RILs=157/enet_perm_pop_alpha0.5/enet_perm_pop_alpha0.5.zip
Kunyan/SNPs=2684 _RILs=157/genotype.xlsx
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[0]Impute_BeforeAfter.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[0]missing.sample.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[0]missing.snp.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]Data.RData
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]ImputeQC_myGD.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]ImputeQC_myGM.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]ImputeQC_myGT.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]ImputeQC_myX.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]Impute_myGD.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]Impute_myGM.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]Impute_myGT.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]Impute_myX.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]QC_myGD.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]QC_myGM.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]QC_myGT.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]QC_myX.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]import.hapamp_information.txt
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]myGD.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]myGM.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]myGT.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]myQC.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]myX.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]myY.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[2]sp.perm.results.RData
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[2]sp.res.RData
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[2]sp.results.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[2]sp.thresholds.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[2]sp.thresholds_before_perm.csv
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]GapPlot.pdf Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]PCoA.pdf Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]tSNE_Euclidean_perplexity=10.pdf Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]tSNE_Euclidean_perplexity=30.pdf Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]tSNE_Euclidean_perplexity=5.pdf Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]tSNE_Euclidean_perplexity=50.pdf
Kunyan/SNPs=2684 _RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[4]information.txt
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[0]Impute_BeforeAfter.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[0]missing.sample.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[0]missing.snp.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]Data.RData
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]ImputeQC_myGD.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]ImputeQC_myGM.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]ImputeQC_myGT.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]ImputeQC_myX.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]Impute_myGD.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]Impute_myGM.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]Impute_myGT.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]Impute_myX.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]QC_myGD.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]QC_myGM.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]QC_myGT.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]QC_myX.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]import.hapamp_information.txt
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]myGD.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]myGM.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]myGT.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]myQC.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]myX.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[1]myY.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[2]sp.perm.results.RData
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[2]sp.res.RData
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[2]sp.results.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[2]sp.thresholds.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[2]sp.thresholds_before_perm.csv
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[3]GapPlot.pdf Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[3]PCoA.pdf
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[3]manhattan_method=TheoreticalY=1_FD=1.jpeg
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[3]manhattan_method=TheoreticalY=1_FD=10.jpeg
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[3]manhattan_method=TheoreticalY=1_FD=5.jpeg
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[3]manhattan_method=TheoreticalY=2_FD=1.jpeg
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[3]manhattan_method=TheoreticalY=2_FD=10.jpeg
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[3]manhattan_method=TheoreticalY=2_FD=5.jpeg
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[3]tSNE_Euclidean_perplexity=10.pdf Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[3]tSNE_Euclidean_perplexity=30.pdf Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[3]tSNE_Euclidean_perplexity=5.pdf Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[3]tSNE_Euclidean_perplexity=50.pdf
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/[4]information.txt
Kunyan/SNPs=2684 _RILs=157/lasso_perm_pop_mode3/lasso_perm_pop_mode3.zip
Kunyan/SNPs=2684 _RILs=157/phenotype.xlsx
Kunyan/SNPs=2684 _RILs=157/sp.gwas_1.4.1.tar.gz
Kunyan/SNPs=2684 _RILs=157/sp.gwas_1.4.1.zip
Kunyan/SNPs=2684_RILs=157.zip
Kunyan/SNPs=2684_RILs=157/2684 SNPs_157RILs_genotype and phenotype data.xlsx
Kunyan/SNPs=2684_RILs=157/RIL genotype.csv
Kunyan/SNPs=2684_RILs=157/RIL phenotype.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[0]Impute_BeforeAfter.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[0]missing.sample.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[0]missing.snp.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]Data.RData
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]ImputeQC_myGD.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]ImputeQC_myGM.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]ImputeQC_myGT.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]ImputeQC_myX.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]Impute_myGD.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]Impute_myGM.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]Impute_myGT.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]Impute_myX.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]QC_myGD.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]QC_myGM.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]QC_myGT.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]QC_myX.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]import.hapamp_information.txt
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]myGD.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]myGM.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]myGT.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]myQC.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]myX.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[1]myY.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[2]sp.perm.results.RData
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[2]sp.res.RData
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[2]sp.results.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[2]sp.thresholds.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[2]sp.thresholds_before_perm.csv
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]GapPlot.pdf Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]PCoA.pdf
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]manhattan_method=Permuted_Y=1_FD=1.jpeg
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]manhattan_method=Permuted_Y=1_FD=10.jpeg
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]manhattan_method=Permuted_Y=1_FD=5.jpeg
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]manhattan_method=Permuted_Y=2_FD=1.jpeg
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]manhattan_method=Permuted_Y=2_FD=10.jpeg
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]manhattan_method=Permuted_Y=2_FD=5.jpeg
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]manhattan_method=Theoretical_Y=1_FD=1.jpeg
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]manhattan_method=Theoretical_Y=1_FD=10.jpeg
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]manhattan_method=Theoretical_Y=1_FD=5.jpeg
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]manhattan_method=Theoretical_Y=2_FD=1.jpeg
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]manhattan_method=Theoretical_Y=2_FD=10.jpeg
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]manhattan_method=Theoretical_Y=2_FD=5.jpeg
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]tSNE_Euclidean_perplexity=10.pdf Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]tSNE_Euclidean_perplexity=30.pdf Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]tSNE_Euclidean_perplexity=5.pdf Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[3]tSNE_Euclidean_perplexity=50.pdf
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/[4]information.txt
Kunyan/SNPs=2684_RILs=157/enet/enet_seed=20201110__2020-11-10_155308/enet_seed=20201110__2020-11-10_155308.zip
Kunyan/SNPs=2684_RILs=157/genotype.xlsx
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[0]Impute_BeforeAfter.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[0]missing.sample.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[0]missing.snp.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]Data.RData
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]ImputeQC_myGD.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]ImputeQC_myGM.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]ImputeQC_myGT.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]ImputeQC_myX.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]Impute_myGD.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]Impute_myGM.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]Impute_myGT.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]Impute_myX.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]QC_myGD.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]QC_myGM.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]QC_myGT.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]QC_myX.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]import.hapamp_information.txt
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]myGD.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]myGM.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]myGT.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]myQC.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]myX.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[1]myY.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[2]sp.perm.results.RData
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[2]sp.res.RData
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[2]sp.results.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[2]sp.thresholds.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[2]sp.thresholds_before_perm.csv
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]GapPlot.pdf Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]PCoA.pdf
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]manhattan_method=Permuted_Y=1_FD=1.jpeg
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]manhattan_method=Permuted_Y=1_FD=10.jpeg
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]manhattan_method=Permuted_Y=1_FD=5.jpeg
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]manhattan_method=Permuted_Y=2_FD=1.jpeg
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]manhattan_method=Permuted_Y=2_FD=10.jpeg
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]manhattan_method=Permuted_Y=2_FD=5.jpeg
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]manhattan_method=Theoretical_Y=1_FD=1.jpeg
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]manhattan_method=Theoretical_Y=1_FD=10.jpeg
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]manhattan_method=Theoretical_Y=1_FD=5.jpeg
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]manhattan_method=Theoretical_Y=2_FD=1.jpeg
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]manhattan_method=Theoretical_Y=2_FD=10.jpeg
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]manhattan_method=Theoretical_Y=2_FD=5.jpeg
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]tSNE_Euclidean_perplexity=10.pdf Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]tSNE_Euclidean_perplexity=30.pdf Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]tSNE_Euclidean_perplexity=5.pdf Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[3]tSNE_Euclidean_perplexity=50.pdf
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/[4]information.txt
Kunyan/SNPs=2684_RILs=157/lasso/lasso_seed=20201110__2020-11-10_153338/lasso_seed=20201110__2020-11-10_153338.zip
Kunyan/SNPs=2684_RILs=157/phenotype.xlsx
Kunyan/SNPs=2684_RILs=157/sp.gwas_1.4.1.tar.gz
Kunyan/SNPs=2684_RILs=157/sp.gwas_1.4.1.zip
Kunyan/code.R
NAMESPACE
R/functions.R R/gapit.functions.R R/import.hapmap.R R/png.contrast.R R/png.impute.snp.R R/png.manhattan_from_dir.R R/png.population.R R/qqman_manhattan.R R/qqman_qq.R R/qqman_zzz.R R/selection.prob.R R/sp.glmnet.R R/sp.gwas-package.R R/sp.gwas.R R/sp.manhattan.R R/sp.threshold.R README.md
data/genotype.csv
data/genotype.rda
data/phenotype.csv
data/phenotype.rda
man/import.hapmap.Rd man/qqman_manhattan.Rd man/qqman_qq.Rd man/sp.gwas-package.Rd man/sp.gwas.Rd sp.gwas_1.3.0.pdf
vignette/sp.gwas.html
vignette/sp.gwas.rmd
statpng/sp.gwas documentation built on Dec. 17, 2020, 5:55 a.m.

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