Files in PhenotypeSimulator
Flexible Phenotype Simulation from Different Genetic and Noise Models

MD5
NEWS.md
LICENSE
DESCRIPTION
README.md
NAMESPACE
inst/doc/Simulation-and-LinearModel.R inst/doc/PhenotypeSimulator.Rmd inst/doc/Sample-scripts-external-genotype-simulation.pdf inst/doc/Simulation-and-LinearModel.pdf inst/doc/Sample-scripts-external-genotype-simulation.Rmd inst/doc/UsagePhenotypeSimulator.R inst/doc/Sample-scripts-external-genotype-simulation.R inst/doc/UsagePhenotypeSimulator.pdf inst/doc/Simulation-and-LinearModel.Rmd inst/doc/PhenotypeSimulator.pdf inst/doc/UsagePhenotypeSimulator.Rmd inst/doc/PhenotypeSimulator.R
inst/extdata/resultsSimulationAndLinearModel/simulated_withEffect.csv
inst/extdata/resultsSimulationAndLinearModel/simulation_phenoComponentsFinal.rds
inst/extdata/resultsSimulationAndLinearModel/gwas_results_gemma_qqplot.png
inst/extdata/resultsSimulationAndLinearModel/SNP_NrSNP10.csv
inst/extdata/resultsSimulationAndLinearModel/SNP_effects_NrSNP10.csv
inst/extdata/resultsSimulationAndLinearModel/correlation_phenotype.pdf
inst/extdata/resultsSimulationAndLinearModel/sigSNPs.csv
inst/extdata/genotypes/genotypes_chr22.csv
inst/extdata/genotypes/hapgen/simulate_genotypes_hapgen2.sh
inst/extdata/genotypes/hapgen/genotypes_hapgen.summary
inst/extdata/genotypes/hapgen/genotypes_hapgen.cases.gen
inst/extdata/genotypes/hapgen/genotypes_hapgen.cases.sample
inst/extdata/genotypes/hapgen/genotypes_hapgen.controls.gen
inst/extdata/genotypes/hapgen/genotypes_hapgen.controls.sample
inst/extdata/genotypes/hapgen/legend_file
inst/extdata/genotypes/plink/genotypes_plink.fam
inst/extdata/genotypes/plink/genotypes_plink.bed
inst/extdata/genotypes/plink/plink_sim_par.txt
inst/extdata/genotypes/plink/simulate_genotypes_plink.sh
inst/extdata/genotypes/plink/genotypes_plink.simfreq
inst/extdata/genotypes/plink/genotypes_plink.log
inst/extdata/genotypes/plink/genotypes_plink.bim
inst/extdata/genotypes/genome/genotypes_genome.txt
inst/extdata/genotypes/genome/simulate_genotypes_genome.sh
inst/extdata/kinship/kinship.csv
vignettes/SimulationAndLinearModel.bib
vignettes/PhenotypeSimulator.Rmd
vignettes/sample-scripts-external-genotype-simulation.html
vignettes/Sample-scripts-external-genotype-simulation.Rmd
vignettes/plos-genetics.csl
vignettes/Simulation-and-LinearModel.Rmd
vignettes/genotype-simulation.bib
vignettes/PhenotypeSimulator.html
R/genotypeFunctions.R R/outputFunctions.R R/RcppExports.R R/variancecomponentFunctions.R R/createphenotypeFunctions.R R/utilityFunctions.R R/commandlineFunctions.R R/pkg.R R/PhenotypeSimulator.R
src/RcppExports.cpp
src/Makevars
src/read_lines.cpp
man/writeStandardOutput.Rd man/standardiseGenotypes.Rd man/commaList2vector.Rd man/readStandardGenotypes.Rd man/geneticFixedEffects.Rd man/probGen2expGen.Rd man/setModel.Rd man/simulatePhenotypes.Rd man/savePheno.Rd man/simulateGenotypes.Rd man/getKinship.Rd man/PhenotypeSimulator.Rd man/runSimulation.Rd man/addNonNulls.Rd man/expGen2probGen.Rd man/correlatedBgEffects.Rd man/noiseFixedEffects.Rd man/read_lines.Rd man/rescaleVariance.Rd man/vmessage.Rd man/getAlleleFrequencies.Rd man/geneticBgEffects.Rd man/transformNonlinear.Rd man/getCausalSNPs.Rd man/noiseBgEffects.Rd man/testNumerics.Rd man/simulateDist.Rd
build/vignette.rds
tests/testthat.R tests/testthat/test-utility.r tests/testthat/test-components.r tests/testthat/test-createphenotypeFunctions.r tests/testthat/test-output.r tests/testthat/test-genotype.r
PhenotypeSimulator documentation built on Oct. 25, 2018, 5:04 p.m.