| apply.polygenic.score | Apply polygenic score to VCF data | 
| assess.pgs.vcf.allele.match | Assess PGS allele match to VCF allele | 
| check.pgs.weight.columns | Check PGS weight file columns | 
| combine.pgs.bed | Combine PGS BED files | 
| combine.vcf.with.pgs | Combine VCF with PGS | 
| convert.allele.frequency.to.dosage | Convert allele frequency to mean dosage | 
| convert.alleles.to.pgs.dosage | Convert alleles to dosage | 
| convert.pgs.to.bed | Convert PGS data to BED format | 
| create.pgs.density.plot | Plot PGS Density | 
| create.pgs.rank.plot | Plot PGS Rank | 
| create.pgs.with.continuous.phenotype.plot | Plot PGS Scatterplots | 
| flip.DNA.allele | Flip DNA allele | 
| format.chromosome.notation | Format chromosome names | 
| get.pgs.percentiles | get.pgs.percentiles | 
| import.pgs.weight.file | Import PGS weight file | 
| import.vcf | Import VCF file | 
| parse.pgs.input.header | Parse PGS input file header | 
| run.pgs.regression | Run linear and logistic regression on a polygenic score and a set of phenotypes | 
| write.apply.polygenic.score.output.to.file | Write apply.polygenic.score output to file |