Man pages for kevinrue/TVTB
TVTB: The VCF Tool Box
| addCountGenos-methods | Add count of genotypes to INFO field |
| addFrequencies-methods | Group-level genotypes counts and allele frequencies |
| addOverallFrequencies-methods | Overall genotypes counts and allele frequencies |
| addPhenoLevelFrequencies-methods | Genotypes and allele frequencies for a given phenotype level |
| autodetectGenotypes | Define genotypes in the TVTBparam metadata slot |
| countGenos-methods | Count occurences of genotypes |
| dropInfo-methods | Remove INFO keys from VCF objects |
| Genotypes-class | Genotypes class objects |
| pairsInfo-methods | Plot an INFO metric on a genomic axis. |
| parseCSQToGRanges | Parse the CSQ column of a VCF object into a GRanges object |
| plotInfo-methods | Plot an INFO metric on a genomic axis. |
| readVcf-methods | Read VCF files |
| tSVE | The Shiny Variant Explorer (tSVE) web-application |
| TVTB-package | TVTB: The VCF Tool Box |
| TVTBParam-class | TVTBparam class objects |
| variantsInSamples-methods | Identify variants observed in samples |
| VcfBasicRules-class | VCF filters class objects sub-types |
| VcfFilterRules-class | VcfFilterRules class objects |
| vepInPhenoLevel-methods | VEP predictions of variants observed in samples |
