VariantExperiment-package | VariantExperiment: A package to represent VCF / GDS files using standard SummarizedExperiment metaphor with on-disk representation. |
altDosage-method | Statistical functions for 'VariantExperiment' objects. |
countSingletons-method | Statistical functions for 'VariantExperiment' objects. |
gdsfile-method | VariantExperiment-class |
heterozygosity-method | Statistical functions for 'VariantExperiment' objects. |
homozygosity-method | Statistical functions for 'VariantExperiment' objects. |
hwe-method | Statistical functions for 'VariantExperiment' objects. |
inbreedCoeff-method | Statistical functions for 'VariantExperiment' objects. |
isSNV-method | Statistical functions for 'VariantExperiment' objects. |
isVariant-method | Statistical functions for 'VariantExperiment' objects. |
loadVariantExperiment | loadVariantExperiment to load the GDS back-end SummarizedExperiment object into R console. |
makeVariantExperimentFromGDS | ShowAvailable |
makeVariantExperimentFromVCF | The function to convert VCF files directly into VariantExperiment object. |
meanBySample-method | Statistical functions for 'VariantExperiment' objects. |
pca-method | Statistical functions for 'VariantExperiment' objects. |
refDosage-method | Statistical functions for 'VariantExperiment' objects. |
saveVariantExperiment | saveVariantExperiment Save all the assays in GDS format, including in-memory assays. Delayed assays with delayed operations on them are realized while they are written to disk. |
seqAlleleCount | Statistical functions for 'VariantExperiment' objects. |
seqAlleleCount-method | Statistical functions for 'VariantExperiment' objects. |
seqAlleleFreq | Statistical functions for 'VariantExperiment' objects. |
seqAlleleFreq-method | Statistical functions for 'VariantExperiment' objects. |
seqMissing | Statistical functions for 'VariantExperiment' objects. |
seqMissing-method | Statistical functions for 'VariantExperiment' objects. |
seqNumAllele-method | Statistical functions for 'VariantExperiment' objects. |
showAvailable | ShowAvailable |
titv-method | Statistical functions for 'VariantExperiment' objects. |
VariantExperiment | VariantExperiment-class |
VariantExperiment-class | VariantExperiment-class |
VariantExperiment-methods | Statistical functions for 'VariantExperiment' objects. |