Files in Bioconductor-mirror/TVTB
TVTB: The VCF Tool Box

.BBSoptions
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
R/AllClasses.R R/AllGenerics.R R/Genotypes-class.R R/TVTBparam-class.R R/VcfFilterRules-class.R R/addCountGenos-methods.R R/addFrequencies-methods.R R/addOverallFrequencies-methods.R R/addPhenoLevelFrequencies-methods.R R/autodetectGenotypes.R R/countGenos-methods.R R/dropInfo.R R/pairsInfo.R R/plotInfo.R R/readVcf-methods.R R/show-methods.R R/tSVE.R R/utils.R R/variantsInSamples-methods.R R/vepInPhenoLevel-methods.R README.md
TVTB.Rproj
appveyor.yml
codecov.yml
inst/NEWS.Rd
inst/badexamples/chr3.dummy1.vcf.gz
inst/badexamples/chr3.dummy2.vcf.gz
inst/badexamples/noCSQ.vcf.gz
inst/badexamples/noCSQ.vcf.gz.tbi
inst/badexamples/pheno_NoOverlap.txt
inst/badexamples/pheno_OnlyColnames.txt
inst/badexamples/pheno_OnlyRownames.txt
inst/badexamples/pheno_PartialOverlap.txt
inst/extdata/ADH1B.bed
inst/extdata/SLC24A5.bed
inst/extdata/chr15.phase3_integrated.vcf.gz
inst/extdata/chr15.phase3_integrated.vcf.gz.tbi
inst/extdata/chr4.phase3_integrated.vcf.gz
inst/extdata/chr4.phase3_integrated.vcf.gz.tbi
inst/extdata/chr4.phase3_integrated.vcf_summary.html
inst/extdata/integrated_samples.txt
inst/extdata/moderate.vcf
inst/extdata/moderate.vcf.gz
inst/extdata/moderate.vcf.gz.tbi
inst/extdata/moderate_pheno.txt
inst/misc/1kgenomes_ADH1B_VEP.sh
inst/misc/1kgenomes_SLC24A5_VEP.sh
inst/misc/motivations_rules.rds
inst/sandbox/SKAT.R inst/sandbox/densityVep-methods.R
inst/sandbox/densityVep-methods.Rd
inst/sandbox/tabulateVep-methods.R
inst/sandbox/tabulateVep-methods.Rd
inst/sandbox/test_densityVep-methods.R inst/sandbox/test_tabulateVep-methods.R
inst/shinyApp/doc/EnsDbFilter.Rd
inst/shinyApp/doc/chr2file.Rd
inst/shinyApp/doc/getEdb.Rd
inst/shinyApp/ensembldbFunctions.R inst/shinyApp/fileParseFunctions.R inst/shinyApp/global.R inst/shinyApp/grangesParseFunctions.R
inst/shinyApp/rds/parallel.rds
inst/shinyApp/regions2vcf.R inst/shinyApp/server.R inst/shinyApp/serverRoutines.R inst/shinyApp/ui.R
inst/shinyApp/www/bootstrap.css
man/Genotypes-class.Rd man/TVTB-package.Rd man/TVTBParam-class.Rd man/VcfBasicRules-class.Rd man/VcfFilterRules-class.Rd man/addCountGenos-methods.Rd man/addFrequencies-methods.Rd man/addOverallFrequencies-methods.Rd man/addPhenoLevelFrequencies-methods.Rd man/autodetectGenotypes.Rd man/countGenos-methods.Rd man/dropInfo-methods.Rd man/pairsInfo-methods.Rd man/plotInfo-methods.Rd man/readVcf-methods.Rd man/tSVE.Rd man/variantsInSamples-methods.Rd man/vepInPhenoLevel-methods.Rd tests/testthat.R tests/testthat/test_Genotypes-class.R tests/testthat/test_TVTBparam-class.R tests/testthat/test_VcfFilterRules-class.R tests/testthat/test_addCountGenos-methods.R tests/testthat/test_addFrequencies-methods.R tests/testthat/test_addOverallFrequencies-methods.R tests/testthat/test_addPhenoLevelFrequencies-methods.R tests/testthat/test_autodetectGenotypes-methods.R tests/testthat/test_countGenos-methods.R tests/testthat/test_dropInfo.R tests/testthat/test_pairsInfo-methods.R tests/testthat/test_plotInfo-methods.R tests/testthat/test_readVcf-methods.R tests/testthat/test_variantsInSamples-methods.R tests/testthat/test_vepInPhenoLevel-methods.R vignettes/Introduction.Rmd
vignettes/TVTB.bib
vignettes/VcfFilterRules.Rmd vignettes/tSVE.Rmd
Bioconductor-mirror/TVTB documentation built on June 1, 2017, 3:21 a.m.