Man pages for ApplyPolygenicScore
Utilities for the Application of a Polygenic Score to a VCF
| 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... |
| write.apply.polygenic.score.output.to.file | Write apply.polygenic.score output to file |
