API for VariantExperiment
A RangedSummarizedExperiment Container for VCF/GDS Data with GDS Backend
| Global functions | |
|---|---|
| .altDosage | Source code |
| .colData_gdsdata | Source code |
| .create_dir | Source code |
| .ctSingleton | Source code |
| .doCompatibleFunction | Source code |
| .granges_gdsdata | Source code |
| .heterozygosity | Source code |
| .homozygosity | Source code |
| .hwe | Source code |
| .inbreedCoeff | Source code |
| .info_seqgds | Source code |
| .infonodes | Source code |
| .initiate_seqgds | Source code |
| .initiate_snpgds | Source code |
| .isSNV | Source code |
| .isVariant | Source code |
| .meanBySample | Source code |
| .pca | Source code |
| .permDim | Source code |
| .refDosage | Source code |
| .rowRanges_gdsdata | Source code |
| .sampnode_gdsdata_ondisk | Source code |
| .sampnodes | Source code |
| .saveGDSMaybe | Source code |
| .seqAlleleCount | Source code |
| .seqAlleleFreq | Source code |
| .seqMissing | Source code |
| .seqNumAllele | Source code |
| .stop_if_bad_dir | Source code |
| .titv | Source code |
| .validate_VariantExperiment | Source code |
| .varnode_gdsdata_ondisk | Source code |
| .varnode_seqgds_inmem | Source code |
| .varnode_snpgds_inmem | Source code |
| .varnodes | Source code |
| .write_ve_as_gds | Source code |
| .write_ve_as_newve | Source code |
| .write_vedata_as_gdsnode | Source code |
| VariantExperiment | Man page Source code |
| VariantExperiment-class | Man page |
| VariantExperiment-methods | Man page |
| VariantExperiment-package | Man page |
| altDosage,VariantExperiment-method | Man page |
| countSingletons,VariantExperiment-method | Man page |
| gdsfile,VariantExperiment-method | Man page |
| heterozygosity,VariantExperiment-method | Man page |
| homozygosity,VariantExperiment-method | Man page |
| hwe,VariantExperiment-method | Man page |
| inbreedCoeff,VariantExperiment-method | Man page |
| isSNV,VariantExperiment-method | Man page |
| isVariant,VariantExperiment-method | Man page |
| loadVariantExperiment | Man page Source code |
| makeVariantExperimentFromGDS | Man page Source code |
| makeVariantExperimentFromVCF | Man page Source code |
| meanBySample,VariantExperiment-method | Man page |
| pca,VariantExperiment-method | Man page |
| refDosage,VariantExperiment-method | Man page |
| saveVariantExperiment | Man page Source code |
| seqAlleleCount | Man page |
| seqAlleleCount,VariantExperiment-method | Man page |
| seqAlleleFreq | Man page |
| seqAlleleFreq,VariantExperiment-method | Man page |
| seqMissing | Man page |
| seqMissing,VariantExperiment-method | Man page |
| seqNumAllele,VariantExperiment-method | Man page |
| showAvailable | Man page Source code |
| titv,VariantExperiment-method | Man page |
| titv,variantExperiment-method | Man page |
