Man pages for SimPhe
Tools to Simulate Phenotype(s) with Epistatic Interaction
| allele.freq | Frequencies of SNPs. |
| build.cor.phe | Build correlated phenotypes |
| build.sd.matrix | build a matrix with standard deviation |
| calc.gene.var | Genetic Variance |
| calc.herit | Calculate heritability |
| check.snp.par | Check the number of the SNPs involved in epistasis and main... |
| count.allele | Count allele frequencies |
| epistasis.pars | Parameter settings of epistatic effects. |
| gene.coefficients | Coefficients of genetic effects. |
| gene.effect | Get genetic effect |
| genepars | Parameter settings for simulation. |
| genetic.scale | Genetic scales of epistatic model |
| get.freq | Calculate the gene(allele) frequency |
| get.gene.coef | Get the coefficients of genetic effect |
| get.noise.var | Suggestion noise |
| list2frame | Convert list to data.frame |
| maineff.pars | Parameter settings of main effects (additive effect and... |
| pars.writer | Write current parameters to file |
| phe.writer | Write phenotypes |
| read.geno | Read genotype data based on the file format |
| read.simu.pars | Read parameters |
| regextract | Extract (sub)strings matching regex pattern |
| sim.phe | Simulation for phenotypes (SimPhe main process) |
| specify.pars | Get the parameters of main/epistatic effects per phenotype |
