Files in VariantAnnotation
Annotation of Genetic Variants

NEWS
DESCRIPTION
NAMESPACE
inst/CITATION
inst/scripts/test_Rplinkseq.R inst/unitTests/test_locateVariants-methods.R inst/unitTests/test_vcfFields.R inst/unitTests/test_summarizeVariants-methods.R inst/unitTests/test_filterVcf.R inst/unitTests/test_writeVcf-methods.R inst/unitTests/test_genotypeToSnpMatrix.R inst/unitTests/test_VRanges-class.R inst/unitTests/test_snpSummary.R inst/unitTests/test_VCF-class.R inst/unitTests/test_ScanVcfParam-class.R inst/unitTests/test_isSNV.R inst/unitTests/test_predictCoding-methods.R inst/unitTests/test_scanVcf.R inst/unitTests/test_expand-methods.R inst/unitTests/test_readVcf-methods.R inst/unitTests/test_SIFTandPolyPhen.R
inst/unitTests/cases/buffer_realloc.vcf
inst/unitTests/cases/FORMAT_header_no_SAMPLEs.vcf
inst/unitTests/cases/VarScan_header.vcf
inst/unitTests/cases/negative_FORMAT_Number.vcf
inst/unitTests/cases/unspecified_INFO_FORMAT_fields.vcf
inst/unitTests/cases/no_FORMAT_column.vcf
inst/unitTests/cases/missing-FORMAT-metadata-elt.vcf
inst/unitTests/cases/meta_header.vcf
inst/unitTests/cases/mixedStructural.vcf
inst/unitTests/cases/expand.vcf
inst/unitTests/cases/no_GENO_row.vcf
inst/unitTests/cases/no_INFO_header.vcf
inst/unitTests/cases/multiple_INFO_fields.vcf
inst/unitTests/cases/banded_gvcf.vcf
inst/unitTests/cases/fewer-FORMAT-than-GENO.vcf
inst/doc/filterVcf.R inst/doc/VariantAnnotation.R
inst/doc/VariantAnnotation.Rnw
inst/doc/filterVcf.Rnw
inst/doc/filterVcf.pdf inst/doc/VariantAnnotation.pdf
inst/extdata/chr7-sub.vcf.gz.tbi
inst/extdata/chr22.vcf.gz
inst/extdata/h1187-10k.vcf.gz.tbi
inst/extdata/gl_chr1.vcf
inst/extdata/structural.vcf
inst/extdata/chr7-sub.vcf.gz
inst/extdata/ex2.vcf
inst/extdata/h1187-10k.vcf.gz
inst/extdata/chr22.vcf.gz.tbi
inst/extdata/hapmap_exome_chr22.vcf.gz.tbi
inst/extdata/hapmap_exome_chr22.vcf.gz
vignettes/VariantAnnotation.Rnw
vignettes/filterVcf.Rnw
vignettes/filterVcf.bib
R/methods-VRangesList-class.R R/methods-scanVcf.R R/methods-import.R R/methods-VcfFile.R R/methods-PROVEANDb.class.R R/methods-summarizeVariants.R R/methods-filterVcf.R R/methods-SIFTDb-class.R R/methods-VCF-class.R R/methods-scanVcfHeader.R R/methods-VCFHeader-class.R R/methods-readVcf.R R/methods-CollapsedVCF-class.R R/AllClasses.R R/methods-VRanges-class.R R/methods-predictCoding.R R/test_VariantAnnotation_package.R R/methods-PolyPhenDb-class.R R/methods-writeVcf.R R/methods-ExpandedVCF-class.R R/AllGenerics.R R/methods-VariantType-class.R R/methods-ScanVcfParam-class.R R/methods-snpSummary.R R/methods-expand.R R/methods-genotypeToSnpMatrix.R R/makeVRangesFromGRanges.R R/methods-locateVariants.R R/AllUtilities.R
src/dna_hash.h
src/strhash.c
src/strhash.h
src/utilities.h
src/Makevars.win
src/Biostrings_stubs.c
src/R_init_VariantAnnotation.c
src/IRanges_stubs.c
src/vcffile.h
src/vcffile.c
src/vcftype.h
src/writevcf.c
src/writevcf.h
src/dna_hash.c
src/Makevars
src/rle.c
src/utilities.c
src/XVector_stubs.c
src/rle.h
src/vcftype.c
man/ScanVcfParam-class.Rd man/SIFTDb-class.Rd man/writeVcf-methods.Rd man/filterVcf-methods.Rd man/genotypeToSnpMatrix-methods.Rd man/snpSummary.Rd man/VRanges-class.Rd man/readVcf-methods.Rd man/locateVariants-methods.Rd man/VariantType-class.Rd man/VRangesList-class.Rd man/probabilityToSnpMatrix.Rd man/SIFTDbColumns.Rd man/seqinfo-method.Rd man/PROVEANDb-class.Rd man/indexVcf-method.Rd man/VCFHeader-class.Rd man/GLtoGP.Rd man/isSNV-methods.Rd man/VCF-class.Rd man/scanVcf-methods.Rd man/getTranscriptSeqs-methods.Rd man/PolyPhenDb-class.Rd man/predictCoding-methods.Rd man/PolyPhenDbColumns.Rd man/VcfFile-class.Rd man/defunct.Rd man/summarizeVariants-methods.Rd
build/vignette.rds
tests/VariantAnnotation_unit_tests.R
VariantAnnotation documentation built on Jan. 11, 2019, 6 p.m.