Files in VariantAnnotation

Annotation of Genetic Variants

R/methods-scanVcfHeader.R R/methods-writeVcf.R R/methods-filterVcf.R R/methods-summarizeVariants.R R/methods-VRanges-class.R R/methods-CollapsedVCF-class.R R/methods-ExpandedVCF-class.R R/methods-snpSummary.R R/AllGenerics.R R/makeVRangesFromGRanges.R R/methods-ScanVcfParam-class.R R/methods-VcfFile.R R/methods-import.R R/test_VariantAnnotation_package.R R/methods-VCF-class.R R/methods-locateVariants.R R/methods-VRangesList-class.R R/methods-predictCoding.R R/methods-expand.R R/methods-PolyPhenDb-class.R R/methods-PROVEANDb.class.R R/methods-scanVcf.R R/methods-VariantType-class.R R/AllClasses.R R/methods-readVcf.R R/methods-SIFTDb-class.R R/methods-VCFHeader-class.R R/AllUtilities.R R/methods-genotypeToSnpMatrix.R man/ScanVcfParam-class.Rd man/genotypeToSnpMatrix-methods.Rd man/VcfFile-class.Rd man/GLtoGP.Rd man/SIFTDb-class.Rd man/SIFTDbColumns.Rd man/defunct.Rd man/VCFHeader-class.Rd man/summarizeVariants-methods.Rd man/PolyPhenDb-class.Rd man/VariantType-class.Rd man/locateVariants-methods.Rd man/VRangesList-class.Rd man/PROVEANDb-class.Rd man/VCF-class.Rd man/PolyPhenDbColumns.Rd man/probabilityToSnpMatrix.Rd man/isSNV-methods.Rd man/filterVcf-methods.Rd man/predictCoding-methods.Rd man/writeVcf-methods.Rd man/snpSummary.Rd man/seqinfo-method.Rd man/scanVcf-methods.Rd man/readVcf-methods.Rd man/indexVcf-method.Rd man/VRanges-class.Rd man/getTranscriptSeqs-methods.Rd tests/VariantAnnotation_unit_tests.R inst/doc/VariantAnnotation.pdf inst/doc/filterVcf.pdf inst/doc/VariantAnnotation.R inst/doc/filterVcf.R inst/scripts/test_Rplinkseq.R inst/unitTests/test_snpSummary.R inst/unitTests/test_readVcf-methods.R inst/unitTests/test_VRanges-class.R inst/unitTests/test_VCF-class.R inst/unitTests/test_isSNV.R inst/unitTests/test_genotypeToSnpMatrix.R inst/unitTests/test_predictCoding-methods.R inst/unitTests/test_SIFTandPolyPhen.R inst/unitTests/test_locateVariants-methods.R inst/unitTests/test_expand-methods.R inst/unitTests/test_vcfFields.R inst/unitTests/test_scanVcf.R inst/unitTests/test_ScanVcfParam-class.R inst/unitTests/test_writeVcf-methods.R inst/unitTests/test_filterVcf.R inst/unitTests/test_summarizeVariants-methods.R