Files in PhenotypeSimulator
Flexible Phenotype Simulation from Different Genetic and Noise Models
MD5
NEWS.md
README.md
NAMESPACE
DESCRIPTION
LICENSE
R/RcppExports.R
R/utilityFunctions.R
R/commandlineFunctions.R
R/PhenotypeSimulator.R
R/variancecomponentFunctions.R
R/createphenotypeFunctions.R
R/pkg.R
R/genotypeFunctions.R
R/outputFunctions.R
src/Makevars
src/RcppExports.cpp
src/read_lines.cpp
inst/CITATION
inst/doc/sample-scripts-external-genotype-simulation.pdf
inst/doc/PhenotypeSimulator.R
inst/doc/sample-scripts-external-genotype-simulation.Rmd
inst/doc/PhenotypeSimulator.pdf
inst/doc/SimulationBasedOnExampleData.pdf
inst/doc/Simulation-and-LinearModel.R
inst/doc/SimulationBasedOnExampleData.Rmd
inst/doc/SimulationBasedOnExampleData.R
inst/doc/Simulation-and-LinearModel.Rmd
inst/doc/sample-scripts-external-genotype-simulation.R
inst/doc/PhenotypeSimulator.Rmd
inst/doc/Simulation-and-LinearModel.pdf
inst/extdata/vignettes/gwas_results_gemma_qqplot.png
inst/extdata/vignettes/cor_simulated.png
inst/extdata/vignettes/wallthickness.png
inst/extdata/vignettes/pheno_small.rds
inst/extdata/vignettes/cor_pheno.png
inst/extdata/vignettes/cor_pheno-min.png
inst/extdata/vignettes/covs.rds
inst/extdata/vignettes/wallthickness-min.png
inst/extdata/vignettes/cor_simulated-min.png
inst/extdata/kinship/kinship.csv
inst/extdata/genotypes/genotypes_chr22.bimbam
inst/extdata/genotypes/genotypes_chr22.csv
inst/extdata/genotypes/hapgen/genotypes_hapgen_chr22.gen
inst/extdata/genotypes/hapgen/genotypes_hapgen.cases.sample
inst/extdata/genotypes/hapgen/simulate_genotypes_hapgen2.sh
inst/extdata/genotypes/hapgen/genotypes_hapgen.controls.sample
inst/extdata/genotypes/hapgen/legend_file
inst/extdata/genotypes/hapgen/genotypes_hapgen.cases.gen
inst/extdata/genotypes/hapgen/genotypes_hapgen.summary
inst/extdata/genotypes/hapgen/genotypes_hapgen.controls.gen
inst/extdata/genotypes/hapgen/genotypes_hapgen_chr22.sample
inst/extdata/genotypes/plink/plink_sim_par.txt
inst/extdata/genotypes/plink/genotypes_plink.simfreq
inst/extdata/genotypes/plink/genotypes_plink.log
inst/extdata/genotypes/plink/simulate_genotypes_plink.sh
inst/extdata/genotypes/plink/genotypes_plink.fam
inst/extdata/genotypes/plink/genotypes_plink.bim
inst/extdata/genotypes/plink/genotypes_plink.bed
inst/extdata/genotypes/genome/simulate_genotypes_genome.sh
inst/extdata/genotypes/genome/genotypes_genome.txt
inst/extdata/resultsSimulationAndLinearModel/gwas_results_gemma_qqplot.png
inst/extdata/resultsSimulationAndLinearModel/SNP_NrSNP10.csv
inst/extdata/resultsSimulationAndLinearModel/simulation_phenoComponentsFinal.rds
inst/extdata/resultsSimulationAndLinearModel/correlation_phenotype.pdf
inst/extdata/resultsSimulationAndLinearModel/sigSNPs.csv
inst/extdata/resultsSimulationAndLinearModel/simulated_withEffect.csv
inst/extdata/resultsSimulationAndLinearModel/SNP_effects_NrSNP10.csv
build/vignette.rds
tests/testthat.R
tests/testthat/test-utility.r
tests/testthat/test-createphenotypeFunctions.r
tests/testthat/test-output.R
tests/testthat/test-genotype.r
tests/testthat/test-components.R
vignettes/gwas_results_gemma_qqplot.png
vignettes/sample-scripts-external-genotype-simulation.Rmd
vignettes/plos-genetics.csl
vignettes/Vignette-example-data.bib
vignettes/SimulationAndLinearModel.bib
vignettes/PhenotypeSimulator.html
vignettes/SimulationBasedOnExampleData.Rmd
vignettes/sample-scripts-external-genotype-simulation.html
vignettes/cor_pheno-min.png
vignettes/genotype-simulation.bib
vignettes/Simulation-and-LinearModel.Rmd
vignettes/wallthickness-min.png
vignettes/cor_simulated-min.png
vignettes/PhenotypeSimulator.Rmd
man/PhenotypeSimulator.Rd
man/getCausalSNPs.Rd
man/geneticFixedEffects.Rd
man/noiseFixedEffects.Rd
man/vmessage.Rd
man/correlatedBgEffects.Rd
man/savePheno.Rd
man/standardiseGenotypes.Rd
man/expGen2probGen.Rd
man/simulateDist.Rd
man/getAlleleFrequencies.Rd
man/geneticBgEffects.Rd
man/commaList2vector.Rd
man/writeStandardOutput.Rd
man/transformNonlinear.Rd
man/readStandardGenotypes.Rd
man/testNumerics.Rd
man/probGen2expGen.Rd
man/addNonNulls.Rd
man/rescaleVariance.Rd
man/simulateGenotypes.Rd
man/noiseBgEffects.Rd
man/simulatePhenotypes.Rd
man/setModel.Rd
man/read_lines.Rd
man/getKinship.Rd
man/runSimulation.Rd
